measurement_concept_id

Sus OP Measurement

Source column measurement_source_concept_id. Maps concepts to standard valid concepts in the measurement domain.

Comment or raise an issue for this mapping.

Sus CCMDS Measurement - Gestation Length at Delivery

• Constant value set to 4260747. Length of gestation at birth

Comment or raise an issue for this mapping.

Sus CCMDS Measurement - Person Weight

• Constant value set to 4099154. Body Weight

Comment or raise an issue for this mapping.

Sus APC Measurement

Source column measurement_source_concept_id. Maps concepts to standard valid concepts in the measurement domain.

Comment or raise an issue for this mapping.

SACT Measurement Weight at Start of Regimen

• Constant value set to 4099154. Body Weight

Comment or raise an issue for this mapping.

SACT Measurement Weight at Start of Cycle

• Constant value set to 4099154. Body Weight

Comment or raise an issue for this mapping.

SACT Measurement Height

• Constant value set to 607590. Body Height

Comment or raise an issue for this mapping.

Oxford Lab Measurement

Source column measurement_source_concept_id. Maps concepts to standard valid concepts in the measurement domain.

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

-- Query to extract Tumour Laterality for UR cancer area from COSD v9.
-- Identifies the side of the body for a tumour relating to paired organs.
-- Only valid laterality codes (L, R, M, B) are included.
-- MeasurementDate uses the primary diagnosis date.
-- TumourLaterality will be mapped to a measurement value concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as MeasurementDate,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'UR'
  and (Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code') in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

-- Query to extract TNM Stage Grouping (Integrated) for UR cancer area from COSD v9.
-- The TNM stage grouping classifies the combination of T, N and M into stage groupings after treatment.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TnmStageGroupingIntegrated will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'UR'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement TNM Category Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

-- Query to extract TNM Stage Grouping (Final Pretreatment) for UR cancer area from COSD v9.
-- The TNM stage grouping classifies the combination of T, N and M into stage groupings before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TnmStageGroupingFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'UR'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Tcategory Integrated Stage

Source column TcategoryIntegratedStage. Lookup TCategory concepts.

TcategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

-- Query to extract T Category (Integrated Stage) for UR cancer area from COSD v9.
-- The T category classifies the size and extent of the primary tumour after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TcategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TcategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'UR'
  and TcategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Tcategory Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

-- Query to extract T Category (Final Pretreatment) for UR cancer area from COSD v9.
-- The T category classifies the size and extent of the primary tumour before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TcategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TcategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'UR'
  and TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Prostate Specific Antigen Diagnosis

• Constant value set to 4272032. Prostate specific antigen measurement

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Primary Pathway/Diagnosis) for UR cancer area from COSD v9.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with UR as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'UR'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from UR
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Non-Primary Pathway - Recurrence) for UR cancer area from COSD v9.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with UR as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'UR'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from UR
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Non-Primary Pathway - Progression) for UR cancer area from COSD v9.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with UR as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'UR'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from UR
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Ncategory Integrated Stage

Source column NcategoryIntegratedStage. Lookup NCategory concepts.

NcategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

-- Query to extract N Category (Integrated Stage) for UR cancer area from COSD v9.
-- The N category classifies the absence or presence and extent of regional lymph node metastases after treatment.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- NcategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NcategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'UR'
  and NcategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Ncategory Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

-- Query to extract N Category (Final Pretreatment) for UR cancer area from COSD v9.
-- The N category classifies the absence or presence and extent of regional lymph node metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- NcategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NcategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'UR'
  and NcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Mcategory Integrated Stage

Source column McategoryIntegratedStage. Lookup concepts.

McategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

-- Query to extract M Category (Integrated Stage) for UR cancer area from COSD v9.
-- The M category classifies the absence or presence of distant metastases after treatment.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- McategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as McategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'UR'
  and McategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Mcategory Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

-- Query to extract M Category (Final Pretreatment) for UR cancer area from COSD v9.
-- The M category classifies the absence or presence of distant metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- McategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as McategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'UR'
  and McategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

-- Query to extract Grade of Differentiation (at Diagnosis) for UR cancer area from COSD v9.
-- The grade classifies the differentiation of the tumour at the time of diagnosis.
-- MeasurementDate uses the primary diagnosis date.
-- GradeOfDifferentiationAtDiagnosis will be mapped to a measurement value concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as MeasurementDate,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'UR'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UR Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

-- Query to extract Tumour Laterality for UR cancer area from COSD v8.
-- Identifies the side of the body for a tumour relating to paired organs.
-- Only valid laterality codes (L, R, M, B) are included.
-- MeasurementDate uses diagnosis date, falling back to non-primary diagnosis date.
-- TumourLaterality will be mapped to a measurement value concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_81
where type = 'UR'
  and (Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.TumourLaterality.@code') in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement TNMcategory Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

-- Query to extract TNM Stage Grouping (Integrated) for UR cancer area from COSD v8.
-- The TNM stage grouping classifies the combination of T, N and M into stage groupings after treatment.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TnmStageGroupingIntegrated will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.IntegratedStageTNMStageGroupingDate',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_81
where type = 'UR'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement TNMcategory Final Pre Treatment Stage

Source column TnmStageGroupingFinalPreTreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPreTreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

-- Query to extract TNM Stage Grouping (Final Pretreatment) for UR cancer area from COSD v8.
-- The TNM stage grouping classifies the combination of T, N and M into stage groupings before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TnmStageGroupingFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPreTreatment
from omop_staging.cosd_staging_81
where type = 'UR'
  and TnmStageGroupingFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Tcategory Integrated Stage

Source column TcategoryIntegratedStage. Lookup TCategory concepts.

TcategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

-- Query to extract T Category (Integrated Stage) for UR cancer area from COSD v8.
-- The T category classifies the size and extent of the primary tumour after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TcategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.IntegratedStageTNMStageGroupingDate',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.IntegratedStageTCategory' as TcategoryIntegratedStage
from omop_staging.cosd_staging_81
where type = 'UR'
  and TcategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Tcategory Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

-- Query to extract T Category (Final Pretreatment) for UR cancer area from COSD v8.
-- The T category classifies the size and extent of the primary tumour before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TcategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.FinalPreTreatmentTCategory' as TcategoryFinalPreTreatment
from omop_staging.cosd_staging_81
where type = 'UR'
  and TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Prostate Specific Antigen Diagnosis

• Constant value set to 4272032. Prostate specific antigen measurement

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Primary Pathway/Diagnosis) for UR cancer area from COSD v8.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with ur as (
    select distinct
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        unnest(
            [
                [ Record ->> '$.Urological.UrologicalCore.UrologicalCoreDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.Urological.UrologicalCore.UrologicalCoreDiagnosis.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'UR'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from ur
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Non Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Non-Primary Pathway) for UR cancer area from COSD v8.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with ur as (
    select distinct
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.Urological.UrologicalCore.UrologicalCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' ],
                Record ->> '$.Urological.UrologicalCore.UrologicalCoreNonPrimaryCancerPathwayRoute.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'UR'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from ur
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Ncategory Integrated Stage

Source column NcategoryIntegratedStage. Lookup NCategory concepts.

NcategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

-- Query to extract N Category (Integrated Stage) for UR cancer area from COSD v8.
-- The N category classifies the absence or presence and extent of regional lymph node metastases after treatment.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- NcategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.IntegratedStageTNMStageGroupingDate',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.IntegratedStageNCategory' as NcategoryIntegratedStage
from omop_staging.cosd_staging_81
where type = 'UR'
  and NcategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Ncategory Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

-- Query to extract N Category (Final Pretreatment) for UR cancer area from COSD v8.
-- The N category classifies the absence or presence and extent of regional lymph node metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- NcategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.FinalPreTreatmentNCategory' as NcategoryFinalPreTreatment
from omop_staging.cosd_staging_81
where type = 'UR'
  and NcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Mcategory Integrated Stage

Source column McategoryIntegratedStage. Lookup concepts.

McategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

-- Query to extract M Category (Integrated Stage) for UR cancer area from COSD v8.
-- The M category classifies the absence or presence of distant metastases after treatment.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- McategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.IntegratedStageTNMStageGroupingDate',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.IntegratedStageMCategory' as McategoryIntegratedStage
from omop_staging.cosd_staging_81
where type = 'UR'
  and McategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Mcategory Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

-- Query to extract M Category (Final Pretreatment) for UR cancer area from COSD v8.
-- The M category classifies the absence or presence of distant metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- McategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreStaging.FinalPreTreatmentMCategory' as McategoryFinalPreTreatment
from omop_staging.cosd_staging_81
where type = 'UR'
  and McategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UR Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

-- Query to extract Grade of Differentiation (at Diagnosis) for UR cancer area from COSD v8.
-- The grade classifies the differentiation of the tumour at the time of diagnosis.
-- MeasurementDate uses diagnosis date, falling back to non-primary diagnosis date.
-- GradeOfDifferentiation will be mapped to a measurement value concept in OMOP in a later step.
select distinct
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis',
        Record ->> '$.Urological.UrologicalCore.UrologicalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.Urological.UrologicalCore.UrologicalCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_81
where type = 'UR'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement Tnm Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'UG'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement Tnm Stage Grouping Final Pretreatment

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'UG'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'UG'
  and TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement T Category Final Pretreatment

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'UG'
  and TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with ug as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'UG'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from ug
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with ug as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'UG'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from ug
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with ug as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'UG'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from ug
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'UG'
  and NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement N Category Final Pretreatment

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'UG'
  and NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'UG'
  and MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement M Category Final Pretreatment

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'UG'
  and MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement Grade Of Differentiation At Diagnosis

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'UG'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V9 UG Measurement Adult Comorbidity Evaluation 27 Score

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from UG
where TumourLaterality is not null
  and TumourLaterality in ('L', 'R', 'M', 'B');
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with ug as (
    select distinct
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        unnest(
            [
                [ Record ->> '$.UpperGI.UpperGICore.UpperGICoreDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.UpperGI.UpperGICore.UpperGICoreDiagnosis.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from ug
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Non Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    Record ->> '$.UpperGI.UpperGICore.UpperGICoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_81
where type = 'UG'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Integrated Stage TNM Stage Grouping

Source column IntegratedStageTNMStageGrouping. Lookup TNMCategory concepts.

IntegratedStageTNMStageGrouping	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• IntegratedStageTNMStageGrouping Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.IntegratedStageTNMStageGrouping' as IntegratedStageTNMStageGrouping
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    IntegratedStageTNMStageGrouping
from UG
where IntegratedStageTNMStageGrouping is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Integrated Stage T Category

Source column IntegratedStageTCategory. Lookup TCategory concepts.

IntegratedStageTCategory	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• IntegratedStageTCategory Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.IntegratedStageTCategory' as IntegratedStageTCategory
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    IntegratedStageTCategory
from UG
where IntegratedStageTCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Integrated Stage N Category

Source column IntegratedStageNCategory. Lookup NCategory concepts.

IntegratedStageNCategory	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• IntegratedStageNCategory Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.IntegratedStageNCategory' as IntegratedStageNCategory
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    IntegratedStageNCategory
from UG
where IntegratedStageNCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Integrated Stage M Category

Source column IntegratedStageMCategory. Lookup concepts.

IntegratedStageMCategory	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• IntegratedStageMCategory Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.IntegratedStageMCategory' as IntegratedStageMCategory
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    IntegratedStageMCategory
from UG
where IntegratedStageMCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    GradeOfDifferentiationAtDiagnosis
from UG
where GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Final Pretreatment TNM Stage Grouping

Source column FinalPreTreatmentTNMStageGrouping. Lookup TNMCategory concepts.

FinalPreTreatmentTNMStageGrouping	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• FinalPreTreatmentTNMStageGrouping Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.FinalPreTreatmentTNMStageGrouping' as FinalPreTreatmentTNMStageGrouping
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    FinalPreTreatmentTNMStageGrouping
from UG
where FinalPreTreatmentTNMStageGrouping is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Final Pretreatment T Category

Source column FinalPreTreatmentTCategory. Lookup TCategory concepts.

FinalPreTreatmentTCategory	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• FinalPreTreatmentTCategory Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.FinalPreTreatmentTCategory' as FinalPreTreatmentTCategory
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    FinalPreTreatmentTCategory
from UG
where FinalPreTreatmentTCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Final Pretreatment N Category

Source column FinalPreTreatmentNCategory. Lookup NCategory concepts.

FinalPreTreatmentNCategory	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• FinalPreTreatmentNCategory Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.FinalPreTreatmentNCategory' as FinalPreTreatmentNCategory
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    FinalPreTreatmentNCategory
from UG
where FinalPreTreatmentNCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Final Pretreatment M Category

Source column FinalPreTreatmentMCategory. Lookup concepts.

FinalPreTreatmentMCategory	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• FinalPreTreatmentMCategory Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with UG as (
    select
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage,
        Record ->> '$.UpperGI.UpperGICore.UpperGICoreStaging.FinalPreTreatmentMCategory' as FinalPreTreatmentMCategory
    from omop_staging.cosd_staging_81
    where type = 'UG'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    FinalPreTreatmentMCategory
from UG
where FinalPreTreatmentMCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 UG Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 SK Measurement TNM Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Code, using a TNM coding edition, that classifies the combination of tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'SK'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement TNM Stage Grouping Final Pretreatment

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Code, using a TNM coding edition, that classifies the combination of tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'SK'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Code, using a TNM coding edition, that classifies the size and extent of the primary tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'SK'
  and TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement T Category Final Pretreatment

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Code, using a TNM coding edition, that classifies the size and extent of the primary tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'SK'
  and TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SK as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'SK'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from SK
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SK as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'SK'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from SK
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SK as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'SK'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from SK
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Code, using a TNM coding edition, that classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'SK'
  and NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement N Category Final Pretreatment

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Code, using a TNM coding edition, that classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'SK'
  and NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Code, using a TNM coding edition, that classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'SK'
  and MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement M Category Final Pretreatment

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Code, using a TNM coding edition, that classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'SK'
  and MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'SK'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SK Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 SK Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

with SK as (
    select
        Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where Type = 'SK'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from SK
where TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V8 SK Measurement TNM Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Code, using a TNM coding edition, that classifies the combination of tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	TnmStageGroupingIntegrated
from SK
where TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V8 SK Measurement TNM Stage Grouping Final Pretreatment

Source column TnmStageGroupingFinalPreTreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPreTreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPreTreatment Code, using a TNM coding edition, that classifies the combination of tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPreTreatment,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	TnmStageGroupingFinalPreTreatment
from SK
where TnmStageGroupingFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement TCategory Integrated Stage

Source column TcategoryIntegratedStage. Lookup TCategory concepts.

TcategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryIntegratedStage Code, using a TNM coding edition, that classifies the size and extent of the primary tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.IntegratedStageTCategory' as TCategoryIntegratedStage,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	TCategoryIntegratedStage
from SK
where TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement TCategory Final Pretreatment

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Code, using a TNM coding edition, that classifies the size and extent of the primary tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.FinalPreTreatmentTCategory' as TCategoryFinalPreTreatment,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	TCategoryFinalPreTreatment
from SK
where TCategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SK as (
    select distinct
        Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        unnest(
            [
                [ Record ->> '$.Skin.SkinCore.SkinCoreDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.Skin.SkinCore.SkinCoreDiagnosis.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where Type = 'SK'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from SK
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement Non Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
		Record ->> '$.Skin.SkinCore.SkinCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' as MetastaticSite
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
	MetastaticSite
from SK
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement NCategory Integrated Stage

Source column NcategoryIntegratedStage. Lookup NCategory concepts.

NcategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryIntegratedStage Code, using a TNM coding edition, that classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.IntegratedStageNCategory' as NCategoryIntegratedStage,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	NCategoryIntegratedStage
from SK
where NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement NCategory Final Pretreatment

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Code, using a TNM coding edition, that classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.FinalPreTreatmentNCategory' as NCategoryFinalPreTreatment,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	NCategoryFinalPreTreatment
from SK
where NCategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement MCategory Integrated Stage

Source column McategoryIntegratedStage. Lookup concepts.

McategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryIntegratedStage Code, using a TNM coding edition, that classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.IntegratedStageMCategory' as MCategoryIntegratedStage,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	MCategoryIntegratedStage
from SK
where MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement MCategory Final Pretreatment

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Code, using a TNM coding edition, that classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.FinalPreTreatmentMCategory' as MCategoryFinalPreTreatment,
		Record ->> '$.Skin.SkinCore.SkinCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	MCategoryFinalPreTreatment
from SK
where MCategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with SK as (
	select
		Record ->> '$.Skin.SkinCore.SkinCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Skin.SkinCore.SkinCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
		Record ->> '$.Skin.SkinCore.SkinCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
	from omop_staging.cosd_staging_81
	where Type = 'SK'
)
select distinct
	NhsNumber,
	coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
	GradeOfDifferentiationAtDiagnosis
from SK
where GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SK Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Indication of the side of the body for a tumour within a patient. TUMOUR LATERALITY

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'SA'
  and TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'SA'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement TNM Category Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'SA'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Tcategory Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'SA'
  and TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Tcategory Final Pre Treatment Stage

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'SA'
  and TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Sarcoma Tumour Site Soft Tissue

Source column measurement_source_concept_id. Maps concepts to standard valid concepts in the measurement domain.

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Sarcoma Tumour Site Bone

Source column measurement_source_concept_id. Maps concepts to standard valid concepts in the measurement domain.

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SA as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'SA'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from SA
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SA as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'SA'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from SA
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SA as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'SA'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from SA
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Ncategory Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'SA'
  and NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Ncategory Final Pre Treatment Stage

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'SA'
  and NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Mcategory Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'SA'
  and MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Mcategory Final Pre Treatment Stage

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'SA'
  and MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'SA'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V9 SA Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Indication of the side of the body for a tumour within a patient. TUMOUR LATERALITY

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from SA
where TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement TNMcategory Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingIntegrated
from SA
where TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement TNMcategory Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPretreatment,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingFinalPretreatment
from SA
where TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Tcategory Integrated Stage

Source column TcategoryIntegratedStage. Lookup TCategory concepts.

TcategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.IntegratedStageTCategory' as TCategoryIntegratedStage,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TCategoryIntegratedStage
from SA
where TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Tcategory Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.FinalPreTreatmentTCategory' as TCategoryFinalPretreatment,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TCategoryFinalPretreatment
from SA
where TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Sarcoma Tumour Site Soft Tissue

Source column measurement_source_concept_id. Maps concepts to standard valid concepts in the measurement domain.

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Sarcoma Tumour Site Bone

Source column measurement_source_concept_id. Maps concepts to standard valid concepts in the measurement domain.

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreDiagnosis.MetastaticSite.@code' as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from SA
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Non Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from SA
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Ncategory Integrated Stage

Source column NcategoryIntegratedStage. Lookup NCategory concepts.

NcategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.IntegratedStageNCategory' as NCategoryIntegratedStage,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NCategoryIntegratedStage
from SA
where NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Ncategory Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.FinalPreTreatmentNCategory' as NCategoryFinalPretreatment,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NCategoryFinalPretreatment
from SA
where NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Mcategory Integrated Stage

Source column McategoryIntegratedStage. Lookup concepts.

McategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.IntegratedStageMCategory' as MCategoryIntegratedStage,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    MCategoryIntegratedStage
from SA
where MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Mcategory Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.FinalPreTreatmentMCategory' as MCategoryFinalPretreatment,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    MCategoryFinalPretreatment
from SA
where MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with SA as (
    select
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Sarcoma.SarcomaCore.SarcomaCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_81
    where type = 'SA'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    GradeOfDifferentiationAtDiagnosis
from SA
where GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD v8 SA Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'LV'
  and TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');

Comment or raise an issue for this mapping.

COSD V9 LV Measurement TNM Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'LV'
  and TnmStageGroupingIntegrated is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement TNM Stage Grouping Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'LV'
  and TnmStageGroupingFinalPretreatment is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Tcategory Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'LV'
  and TCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Tcategory Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TcategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'LV'
  and TcategoryFinalPreTreatment is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with lv as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'LV'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from lv
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with lv as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'LV'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from lv
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with lv as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'LV'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from lv
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Ncategory Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'LV'
  and NCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Ncategory Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NcategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'LV'
  and NcategoryFinalPreTreatment is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Mcategory Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'LV'
  and MCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Mcategory Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as McategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'LV'
  and McategoryFinalPreTreatment is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'LV'
  and GradeOfDifferentiationAtDiagnosis is not null;

Comment or raise an issue for this mapping.

COSD V9 LV Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD v8 LV Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

with lv as (
    select
        Record ->> '$.Liver.LiverCore.LiverCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where Type = 'LV'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from lv
where TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');

Comment or raise an issue for this mapping.

COSD v8 LV Measurement TNM Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

with lv as (
    select
        Record ->> '$.Liver.LiverCore.LiverCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Liver.LiverCore.LiverCoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated,
        Record ->> '$.Liver.LiverCore.LiverCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'LV'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingIntegrated
from lv
where TnmStageGroupingIntegrated is not null;

Comment or raise an issue for this mapping.

COSD v8 LV Measurement Tcategory Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

with lv as (
    select
        Record ->> '$.Liver.LiverCore.LiverCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Liver.LiverCore.LiverCoreStaging.IntegratedStageTCategory' as TCategoryIntegratedStage,
        Record ->> '$.Liver.LiverCore.LiverCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'LV'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TCategoryIntegratedStage
from lv
where TCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD v8 LV Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with lv as (
    select
        Record ->> '$.Liver.LiverCore.LiverCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Liver.LiverCore.LiverCoreDiagnosis.MetastaticSite.@code' as MetastaticSite
    from omop_staging.cosd_staging_81
    where Type = 'LV'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from lv
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD v8 LV Measurement Ncategory Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with lv as (
    select
        Record ->> '$.Liver.LiverCore.LiverCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Liver.LiverCore.LiverCoreStaging.IntegratedStageNCategory' as NCategoryIntegratedStage,
        Record ->> '$.Liver.LiverCore.LiverCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'LV'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NCategoryIntegratedStage
from lv
where NCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD v8 LV Measurement Mcategory Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with lv as (
    select
        Record ->> '$.Liver.LiverCore.LiverCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Liver.LiverCore.LiverCoreStaging.IntegratedStageMCategory' as MCategoryIntegratedStage,
        Record ->> '$.Liver.LiverCore.LiverCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'LV'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    MCategoryIntegratedStage
from lv
where MCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD v8 LV Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with lv as (
    select
        Record ->> '$.Liver.LiverCore.LiverCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Liver.LiverCore.LiverCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Liver.LiverCore.LiverCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_81
    where Type = 'LV'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    GradeOfDifferentiationAtDiagnosis
from lv
where GradeOfDifferentiationAtDiagnosis is not null;

Comment or raise an issue for this mapping.

COSD v8 LV Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

select 
	distinct
	    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NHSNumber,
	    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
	    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'LU'
  and (Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code') in ('L','R','M','B')
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the TNM Stage Grouping (Integrated) which provides a precise summary of the anatomical extent of cancer. TNM STAGE GROUPING (INTEGRATED)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NHSNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'LU'
  and TnmStageGroupingIntegrated is not null
  and NHSNumber is not null
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement TNM Category Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the TNM Stage Grouping (Final pre-treatment) which provides a precise summary of the anatomical extent of cancer. TNM STAGE GROUPING (FINAL PRETREATMENT)

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NHSNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'LU'
  and TnmStageGroupingFinalPretreatment is not null
  and NHSNumber is not null
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour for the integrated stage during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NHSNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'LU'
  and TCategoryIntegratedStage is not null
  and NHSNumber is not null
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement T Category Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NHSNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TcategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'LU'
  and TcategoryFinalPreTreatment is not null
  and NHSNumber is not null
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS for the primary pathway. METASTATIC SITE (AT DIAGNOSIS)

with lung as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NHSNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest ([[Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticType.@code'], Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticType.@code'], recursive := true) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'LU'
)
select distinct
    NHSNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from lung
where MetastaticSite is not null
  and MetastaticSite != '97'
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement Non Primary Pathway Recurrence Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at recurrence for a non-primary cancer pathway. METASTATIC SITE (RECURRENCE)

with lung as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NHSNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest ([[Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code'], Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'], recursive := true) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'LU'
)
select distinct
    NHSNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from lung
where MetastaticSite is not null
  and MetastaticSite != '97'
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement Non Primary Pathway Progression Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at progression for a non-primary cancer pathway. METASTATIC SITE (PROGRESSION)

with lung as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NHSNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest ([[Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code'], Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'], recursive := true) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'LU'
)
select
    distinct
    NHSNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from lung
where MetastaticSite is not null
  and MetastaticSite != '97'
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage The N category (regional lymph nodes) assigned to the tumour for the integrated stage. N CATEGORY INTEGRATED STAGE

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'LU'
  and NCategoryIntegratedStage is not null
  and NhsNumber is not null
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement N Category Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment The N category (regional lymph nodes) assigned to the tumour at the time of the final pre-treatment stage. N CATEGORY FINAL PRETREATMENT

select
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NcategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'LU'
  and NcategoryFinalPreTreatment is not null
  and NhsNumber is not null
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage The M category (distant metastasis) assigned to the tumour for the integrated stage. M CATEGORY INTEGRATED STAGE

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'LU'
  and MCategoryIntegratedStage is not null
  and NhsNumber is not null
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement M Category Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment The M category (distant metastasis) assigned to the tumour at the time of the final pre-treatment stage. M CATEGORY FINAL PRETREATMENT

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as McategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'LU'
  and McategoryFinalPreTreatment is not null
  and NhsNumber is not null
	

Comment or raise an issue for this mapping.

COSD V9 Lung Measurement Grade of Differentiation (At Diagnosis)

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select
    distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where Type = 'LU'
  and GradeOfDifferentiationAtDiagnosis is not null
  and NhsNumber is not null
	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality An indication of the side of the body on which the Primary Tumour originated. Valid values are: L (Left), R (Right), M (Midline), B (Bilateral). TUMOUR LATERALITY

with lung as (
    select
        Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where Type = 'LU'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from lung
where TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B')
  and NhsNumber is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

with lung as (
    select
        Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Lung.LungCore.LungCoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated,
        Record ->> '$.Lung.LungCore.LungCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'LU'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingIntegrated
from lung
where TnmStageGroupingIntegrated is not null
and NhsNumber is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement TNM Category Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment The TNM STAGE GROUPING (FINAL PRETREATMENT) is a combination of the results of the clinical T, N and M, the T, N and M assigned on the basis of the operative findings, and the pathological T, N and M, recorded before the start of treatment, coded at the end of the CANCER CARE SPELL. TNM STAGE GROUPING (FINAL PRETREATMENT)

with lung as (
    select
        Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Lung.LungCore.LungCoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPretreatment,
        Record ->> '$.Lung.LungCore.LungCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where Type = 'LU'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingFinalPretreatment
from lung
where TnmStageGroupingFinalPretreatment is not null
and NhsNumber is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

with lung as (
    select
        Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Lung.LungCore.LungCoreStaging.IntegratedStageTCategory' as TCategoryIntegratedStage,
        Record ->> '$.Lung.LungCore.LungCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'LU'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TCategoryIntegratedStage
from lung
where TCategoryIntegratedStage is not null
and NhsNumber is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement T Category Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with lung as (
    select
        Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Lung.LungCore.LungCoreStaging.FinalPreTreatmentTCategory' as TcategoryFinalPreTreatment,
        Record ->> '$.Lung.LungCore.LungCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where Type = 'LU'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TcategoryFinalPreTreatment
from lung
where TcategoryFinalPreTreatment is not null
and NhsNumber is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite A code that records the site(s) of metastatic disease at diagnosis. METASTATIC SITE

with lung as (
select 
    Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    unnest(
      [
        [
          Record ->> '$.Lung.LungCore.LungCoreDiagnosis.MetastaticSite.@code'
        ], 
        Record ->> '$.Lung.LungCore.LungCoreDiagnosis.MetastaticSite[*].@code'
      ], recursive := true
    ) as MetastaticSite
from omop_staging.cosd_staging_81
where Type = 'LU'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from lung
where MetastaticSite is not null
  and MetastaticSite != 97
  and NhsNumber is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement Non Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite A code that records the site(s) of metastatic disease relating to a Non-Primary Cancer Pathway. METASTATIC SITE (NON PRIMARY CANCER PATHWAY)

with lung as (
    select distinct
        Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.Lung.LungCore.LungCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' ],
                Record ->> '$.Lung.LungCore.LungCoreNonPrimaryCancerPathwayRoute.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'LU'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from lung
where MetastaticSite is not null
  and MetastaticSite != '97'
  and NhsNumber is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with lung as (
	select 
		Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Lung.LungCore.LungCoreStaging.IntegratedStageNCategory' as NCategoryIntegratedStage,
		Record ->> '$.Lung.LungCore.LungCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
	from omop_staging.cosd_staging_81
	where Type = 'LU'
)
select distinct
	NhsNumber,
	coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	NCategoryIntegratedStage
from lung
where NCategoryIntegratedStage is not null
and NhsNumber is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement N Category (Final Pretreatment)

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with lung as (
	select 
		Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
		Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Lung.LungCore.LungCoreStaging.FinalPreTreatmentNCategory' as NcategoryFinalPreTreatment,
		Record ->> '$.Lung.LungCore.LungCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
	from omop_staging.cosd_staging_81
	where Type = 'LU'
)
select distinct
	NHSNumber,
	coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	NcategoryFinalPreTreatment
from lung
where NcategoryFinalPreTreatment is not null
and NHSNumber is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement M Category (Integrated Stage)

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases using the integrated stage during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with lung as (
	select 
		Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
		Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Lung.LungCore.LungCoreStaging.IntegratedStageMCategory' as MCategoryIntegratedStage,
		Record ->> '$.Lung.LungCore.LungCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
	from omop_staging.cosd_staging_81
	where Type = 'LU'
)
select distinct
	NHSNumber,
	coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	MCategoryIntegratedStage
from lung
where MCategoryIntegratedStage is not null
and NHSNumber is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement M Category (Final Pretreatment)

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with lung as (
	select 
		Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
		Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Lung.LungCore.LungCoreStaging.FinalPreTreatmentMCategory' as McategoryFinalPreTreatment,
		Record ->> '$.Lung.LungCore.LungCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
	from omop_staging.cosd_staging_81
	where Type = 'LU'
)
select distinct
	NHSNumber,
	coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	McategoryFinalPreTreatment
from lung
where McategoryFinalPreTreatment is not null
and NHSNumber is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Lung Measurement Grade of Differentiation (At Diagnosis)

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with lung as (
	select 
		Record ->> '$.Lung.LungCore.LungCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
		Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Lung.LungCore.LungCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
		Record ->> '$.Lung.LungCore.LungCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
	from omop_staging.cosd_staging_81
	where Type = 'LU'
)
select distinct
	NHSNumber,
	coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
	GradeOfDifferentiationAtDiagnosis
from lung
where GradeOfDifferentiationAtDiagnosis is not null
and NHSNumber is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HN Measurement Tnm Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

-- Query to extract TNM Stage Grouping (Integrated) for HN cancer area from COSD v9.
-- The TNM stage grouping classifies the combination of tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TnmStageGroupingIntegrated will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'HN'
  and TnmStageGroupingIntegrated is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement Tnm Stage Grouping Final Pretreatment

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

-- Query to extract TNM Stage Grouping (Final Pretreatment) for HN cancer area from COSD v9.
-- The TNM stage grouping classifies the combination of tumour, node and metastases into stage groupings before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TnmStageGroupingFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'HN'
  and TnmStageGroupingFinalPretreatment is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

-- Query to extract T Category (Integrated Stage) for HN cancer area from COSD v9.
-- The T category classifies the size and extent of the primary tumour after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TCategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'HN'
  and TCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement T Category Final Pretreatment

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

-- Query to extract T Category (Final Pretreatment) for HN cancer area from COSD v9.
-- The T category classifies the size and extent of the primary tumour before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TCategoryFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'HN'
  and TCategoryFinalPretreatment is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site from the Primary Pathway for HN cancer area from COSD v9.
-- MetastaticSite records the site of metastatic disease at patient diagnosis, excluding code 97 (not applicable).
-- Uses unnest to flatten the array of metastatic sites into individual rows.
-- MetastaticSite will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'HN'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from hn
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD V9 HN Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site from the Non Primary Pathway (Recurrence) for HN cancer area from COSD v9.
-- MetastaticSite records the site of metastatic disease at recurrence, excluding code 97 (not applicable).
-- Uses unnest to flatten the array of metastatic sites into individual rows.
-- MetastaticSite will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'HN'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from hn
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD V9 HN Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site from the Non Primary Pathway (Progression) for HN cancer area from COSD v9.
-- MetastaticSite records the site of metastatic disease at progression, excluding code 97 (not applicable).
-- Uses unnest to flatten the array of metastatic sites into individual rows.
-- MetastaticSite will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'HN'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from hn
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD V9 HN Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

-- Query to extract N Category (Integrated Stage) for HN cancer area from COSD v9.
-- The N category classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- NCategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'HN'
  and NCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement N Category Final Pretreatment

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

-- Query to extract N Category (Final Pretreatment) for HN cancer area from COSD v9.
-- The N category classifies the absence or presence and extent of regional lymph node metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- NCategoryFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'HN'
  and NCategoryFinalPretreatment is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

-- Query to extract M Category (Integrated Stage) for HN cancer area from COSD v9.
-- The M category classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- MCategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'HN'
  and MCategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement M Category Final Pretreatment

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

-- Query to extract M Category (Final Pretreatment) for HN cancer area from COSD v9.
-- The M category classifies the absence or presence of distant metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- MCategoryFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'HN'
  and MCategoryFinalPretreatment is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement Grade Of Differentiation At Diagnosis

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

-- Query to extract Grade of Differentiation (At Diagnosis) for HN cancer area from COSD v9.
-- The grade represents the definitive grade of the tumour at the time of patient diagnosis.
-- GradeOfDifferentiationAtDiagnosis will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'HN'
  and GradeOfDifferentiationAtDiagnosis is not null;

Comment or raise an issue for this mapping.

COSD V9 HN Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

-- Query to extract Tumour Laterality for HN cancer area from COSD v8.
-- Identifies the side of the body for a tumour relating to paired organs, filtering only valid laterality codes.
-- MeasurementDate uses primary diagnosis date, falling back to non-primary diagnosis date.
-- TumourLaterality will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from hn
where TumourLaterality in ('L', 'R', 'M', 'B');

Comment or raise an issue for this mapping.

COSD v8 HN Measurement TNMcategory Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

-- Query to extract TNM Stage Grouping (Integrated) for HN cancer area from COSD v8.
-- The TNM stage grouping classifies the combination of tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TnmStageGroupingIntegrated will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingIntegrated
from hn
where TnmStageGroupingIntegrated is not null;

Comment or raise an issue for this mapping.

COSD v8 HN Measurement TNMcategory Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

-- Query to extract TNM Stage Grouping (Final Pretreatment) for HN cancer area from COSD v8.
-- The TNM stage grouping classifies the combination of tumour, node and metastases into stage groupings before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TnmStageGroupingFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPretreatment
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingFinalPretreatment
from hn
where TnmStageGroupingFinalPretreatment is not null;

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Tcategory Integrated Stage

Source column TcategoryIntegratedStage. Lookup TCategory concepts.

TcategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

-- Query to extract T Category (Integrated Stage) for HN cancer area from COSD v8.
-- The T category classifies the size and extent of the primary tumour after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TcategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.IntegratedStageTCategory' as TcategoryIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TcategoryIntegratedStage
from hn
where TcategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Tcategory Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

-- Query to extract T Category (Final Pretreatment) for HN cancer area from COSD v8.
-- The T category classifies the size and extent of the primary tumour before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TcategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.FinalPreTreatmentTCategory' as TcategoryFinalPreTreatment
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TcategoryFinalPreTreatment
from hn
where TcategoryFinalPreTreatment is not null;

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site from the Primary Pathway for HN cancer area from COSD v8.
-- MetastaticSite records the site of metastatic disease at patient diagnosis, excluding code 97 (not applicable).
-- MetastaticSite will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreDiagnosis.MetastaticSite.@code' as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from hn
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Non Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site from the Non Primary Pathway for HN cancer area from COSD v8.
-- MetastaticSite records the site of metastatic disease in the non-primary cancer pathway, excluding code 97 (not applicable).
-- MetastaticSite will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from hn
where MetastaticSite is not null
  and MetastaticSite != '97';

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Ncategory Integrated Stage

Source column NcategoryIntegratedStage. Lookup NCategory concepts.

NcategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

-- Query to extract N Category (Integrated Stage) for HN cancer area from COSD v8.
-- The N category classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- NcategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.IntegratedStageNCategory' as NcategoryIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NcategoryIntegratedStage
from hn
where NcategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Ncategory Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

-- Query to extract N Category (Final Pretreatment) for HN cancer area from COSD v8.
-- The N category classifies the absence or presence and extent of regional lymph node metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- NcategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.FinalPreTreatmentNCategory' as NcategoryFinalPreTreatment
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NcategoryFinalPreTreatment
from hn
where NcategoryFinalPreTreatment is not null;

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Mcategory Integrated Stage

Source column McategoryIntegratedStage. Lookup concepts.

McategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

-- Query to extract M Category (Integrated Stage) for HN cancer area from COSD v8.
-- The M category classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- McategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.IntegratedStageMCategory' as McategoryIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    McategoryIntegratedStage
from hn
where McategoryIntegratedStage is not null;

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Mcategory Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

-- Query to extract M Category (Final Pretreatment) for HN cancer area from COSD v8.
-- The M category classifies the absence or presence of distant metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- McategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreStaging.FinalPreTreatmentMCategory' as McategoryFinalPreTreatment
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    McategoryFinalPreTreatment
from hn
where McategoryFinalPreTreatment is not null;

Comment or raise an issue for this mapping.

COSD v8 HN Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

-- Query to extract Grade of Differentiation (At Diagnosis) for HN cancer area from COSD v8.
-- The grade represents the definitive grade of the tumour at the time of patient diagnosis.
-- MeasurementDate uses the diagnosis date, falling back to non-primary diagnosis date.
-- GradeOfDifferentiationAtDiagnosis will be mapped to a measurement concept in OMOP in a later step.
with hn as (
    select
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.HeadNeck.HeadNeckCore.HeadNeckCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_81
    where type = 'HN'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    GradeOfDifferentiationAtDiagnosis
from hn
where GradeOfDifferentiationAtDiagnosis is not null;

Comment or raise an issue for this mapping.

COSD V8 HN Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    -- Tumour Laterality: side of body for tumour. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'HA'
  and TumourLaterality is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Tnm Stage Grouping Final Pretreatment

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    -- TNM Stage Grouping: combined TNM stage before treatment. Will be mapped to a measurement concept in a later ETL step.
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'HA'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement T Category Final Pretreatment

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select distinct
    -- NHS Number: unique patient identifier
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    -- Measurement date: prefer stage date, fall back to primary diagnosis date
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    -- T Category: TNM T component of the final pretreatment staging. Will be mapped to a measurement concept in a later ETL step.
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'HA'
  and TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement RIPI Index For DLBCL Score

• Constant value set to 37396673. International Prognostic Index

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Recurrence Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite The site of the metastatic disease at PATIENT DIAGNOSIS during a Cancer Care Spell (recurrence pathway). METASTATIC SITE (AT DIAGNOSIS)

with ha as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        -- Metastatic Site from recurrence pathway. Unnested because MetastaticTypeAndSiteRecurrence may contain multiple entries.
        unnest(
            [
                [Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code'],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'HA'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from ha
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Progression Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite The site of the metastatic disease at PATIENT DIAGNOSIS during a Cancer Care Spell (progression pathway). METASTATIC SITE (AT DIAGNOSIS)

with ha as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        -- Metastatic Site from progression pathway. Unnested because MetastaticTypeAndSiteProgression may contain multiple entries.
        unnest(
            [
                [Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code'],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'HA'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from ha
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite The site of the metastatic disease at PATIENT DIAGNOSIS during a Cancer Care Spell. METASTATIC SITE (AT DIAGNOSIS)

with ha as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        -- Metastatic Site at primary diagnosis. Unnested because MetastaticTypeAndSiteDiagnosis may contain multiple entries.
        unnest(
            [
                [Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code'],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'HA'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from ha
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement N Category Final Pretreatment

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    -- N Category: TNM N component of the final pretreatment staging. Will be mapped to a measurement concept in a later ETL step.
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'HA'
  and NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement M Category Final Pretreatment

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    -- M Category: TNM M component of the final pretreatment staging. Will be mapped to a measurement concept in a later ETL step.
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'HA'
  and MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS during a Cancer Care Spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    -- Grade of Differentiation: definitive grade of tumour at diagnosis. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'HA'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Binet Stage

Source column BinetStage. BINET STAGE

BinetStage	measurement_concept_id	notes
A	1635315	Stage A: platelet count greater than 99 and haemoglobin greater than 99 and 0, 1, or 2 areas of organ enlargement (number of lymph node groups plus score 1 for hepatomegaly, 1 for splenomegaly)
B	1635179	Stage B: platelet count greater than 99 and haemoglobin greater than 99 and 3, 4, or 5 areas of organ enlargement
C	1635062	Stage C: haemoglobin less than 100 or platelet count less than 100

• BinetStage Binet Classification stage for a patient during a haematological cancer care spell. BINET STAGE

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    -- Binet Stage: CLL staging classification. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.PrimaryPathway.StagingSiteSpecific.StagingHaematological.StagingCLL.BinetStage.@code' as BinetStage
from omop_staging.cosd_staging_901
where type = 'HA'
  and BinetStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Ann Arbor Stage

Source column AnnArborStage. ANN ARBOR STAGE

AnnArborStage	measurement_concept_id	notes
1	1633291	Stage I: one region of lymph nodes, or spleen or thymus or Waldeyer’s ring enlarged
2	1634430	Stage II: 2 regions of lymph nodes enlarged on the same side of the diaphragm
3	1635140	Stage III: lymph nodes enlarged on both sides of the diaphragm
4	1633464	Stage IV: disease outside lymph nodes (e.g. liver, bone marrow), excluding “E”

• AnnArborStage Ann Arbor Staging System stage based on the location and extent of detected disease for a patient during a haematological cancer care spell. ANN ARBOR STAGE

with ha as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        -- Ann Arbor Stage: haematological staging based on location and extent of disease. Unnested because StagingSiteSpecific may contain multiple entries.
        unnest(
            [
                [Record ->> '$.PrimaryPathway.StagingSiteSpecific.StagingHaematological.StagingAnnArbor.AnnArborStage.@code'],
                Record ->> '$.PrimaryPathway.StagingSiteSpecific[*].StagingHaematological.StagingAnnArbor.AnnArborStage.@code'
            ],
            recursive := true
        ) as AnnArborStage
    from omop_staging.cosd_staging_901
    where type = 'HA'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    AnnArborStage
from ha
where AnnArborStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Ann Arbor Bulk Disease Indication Code

Source column AnnArborBulk. ANN ARBOR BULKY DISEASE INDICATION CODE

AnnArborBulk	measurement_concept_id	notes
X	1633986	Bulky disease present
0	0	No bulky disease present

• AnnArborBulk Indicates the Ann Arbor Staging System stage designation based on the presence of bulky disease during a haematological cancer care spell. ANN ARBOR BULKY DISEASE INDICATION CODE

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    -- Ann Arbor Bulky Disease: indicates presence of bulky disease. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.PrimaryPathway.AnnArborExtensions.AnnArborBulk.@code' as AnnArborBulk
from omop_staging.cosd_staging_901
where type = 'HA'
  and AnnArborBulk is not null;
	

Comment or raise an issue for this mapping.

COSD V9 HA Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 HA Measurement White Blood Cell Count Highest Pretreatment

• Constant value set to 4298431. White blood cell count

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

select distinct
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    -- Tumour Laterality: side of body for tumour. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_81
where type = 'HA'
  and TumourLaterality is not null;
	

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite The site of the metastatic disease at PATIENT DIAGNOSIS during a Cancer Care Spell. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    -- Metastatic Site at primary diagnosis. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreDiagnosis.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_81
where type = 'HA'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Non Primary Pathway Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite The site of the metastatic disease at PATIENT DIAGNOSIS during a Cancer Care Spell (non-primary pathway). METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    -- Metastatic Site from non-primary cancer pathway. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_81
where type = 'HA'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Lymphocyte Count

• Constant value set to 4254663. Lymphocyte Count

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Lactate Dehydrogenase Level

• Constant value set to 4012918. Lactate dehydrogenase [Enzyme] in Blood

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Haemoglobin Concentration

• Constant value set to 3000963. Hemoglobin [Mass/volume] in Blood

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Grade Of Differentiation

Source column DiagnosisGradeOfDifferentiation. Lookup GradeDifferentiation concepts.

DiagnosisGradeOfDifferentiation	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• DiagnosisGradeOfDifferentiation The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS during a Cancer Care Spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select distinct
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    -- Grade of Differentiation: definitive grade of tumour at diagnosis. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as DiagnosisGradeOfDifferentiation
from omop_staging.cosd_staging_81
where type = 'HA'
  and DiagnosisGradeOfDifferentiation is not null;
	

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Final Pre Treatment Tcategory

Source column FinalPreTreatmentTCategory. Lookup TCategory concepts.

FinalPreTreatmentTCategory	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• FinalPreTreatmentTCategory Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with ha as (
    select distinct
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as FinalPreTreatmentTNMStageGroupingDate,
        -- T Category: TNM T component of the final pretreatment staging. Will be mapped to a measurement concept in a later ETL step.
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreStaging.FinalPreTreatmentTCategory' as FinalPreTreatmentTCategory
    from omop_staging.cosd_staging_81
    where type = 'HA'
)
select distinct
    NhsNumber,
    coalesce(FinalPreTreatmentTNMStageGroupingDate, ClinicalDateCancerDiagnosis) as MeasurementDate,
    FinalPreTreatmentTCategory
from ha
where FinalPreTreatmentTCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Final Pre Treatment Ncategory

Source column FinalPreTreatmentNCategory. Lookup NCategory concepts.

FinalPreTreatmentNCategory	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• FinalPreTreatmentNCategory Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with ha as (
    select distinct
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as FinalPreTreatmentTNMStageGroupingDate,
        -- N Category: TNM N component of the final pretreatment staging. Will be mapped to a measurement concept in a later ETL step.
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreStaging.FinalPreTreatmentNCategory' as FinalPreTreatmentNCategory
    from omop_staging.cosd_staging_81
    where type = 'HA'
)
select distinct
    NhsNumber,
    coalesce(FinalPreTreatmentTNMStageGroupingDate, ClinicalDateCancerDiagnosis) as MeasurementDate,
    FinalPreTreatmentNCategory
from ha
where FinalPreTreatmentNCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Final Pre Treatment Mcategory

Source column FinalPreTreatmentMCategory. Lookup concepts.

FinalPreTreatmentMCategory	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• FinalPreTreatmentMCategory Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with ha as (
    select distinct
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as FinalPreTreatmentTNMStageGroupingDate,
        -- M Category: TNM M component of the final pretreatment staging. Will be mapped to a measurement concept in a later ETL step.
        Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreStaging.FinalPreTreatmentMCategory' as FinalPreTreatmentMCategory
    from omop_staging.cosd_staging_81
    where type = 'HA'
)
select distinct
    NhsNumber,
    coalesce(FinalPreTreatmentTNMStageGroupingDate, ClinicalDateCancerDiagnosis) as MeasurementDate,
    FinalPreTreatmentMCategory
from ha
where FinalPreTreatmentMCategory is not null;
	

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Beta 2 Microglobulin Level

• Constant value set to 4216186. Beta-2-microglobulin measurement

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Ann Arbor Stage

Source column AnnArborStage. ANN ARBOR STAGE

AnnArborStage	measurement_concept_id	notes
1	1633291	Stage I: one region of lymph nodes, or spleen or thymus or Waldeyer’s ring enlarged
2	1634430	Stage II: 2 regions of lymph nodes enlarged on the same side of the diaphragm
3	1635140	Stage III: lymph nodes enlarged on both sides of the diaphragm
4	1633464	Stage IV: disease outside lymph nodes (e.g. liver, bone marrow), excluding “E”

• AnnArborStage Ann Arbor Staging System stage based on the location and extent of detected disease for a patient during a haematological cancer care spell. ANN ARBOR STAGE

select distinct
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    -- Ann Arbor Stage: haematological staging based on location and extent of disease. Will be mapped to a measurement value concept in a later ETL step.
    Record ->> '$.Haematological.HaematologicalCore.HaematologicalCoreStaging.HaematologyStagingAnnArbor.AnnArborStage.@code' as AnnArborStage
from omop_staging.cosd_staging_81
where type = 'HA'
  and AnnArborStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 HA Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 GY Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'GY'
  and TumourLaterality in ('L', 'R', 'M', 'B');
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement Tnm Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'GY'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement Tnm Stage Grouping Final Pretreatment

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'GY'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'GY'
  and TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement T Category Final Pretreatment

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'GY'
  and TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with gy as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'GY'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from gy
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with gy as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'GY'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from gy
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with gy as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'GY'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from gy
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'GY'
  and NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement N Category Final Pretreatment

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'GY'
  and NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'GY'
  and MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement M Category Final Pretreatment

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'GY'
  and MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 GY Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from gy
where TumourLaterality is not null
  and TumourLaterality in ('L', 'R', 'M', 'B');
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement TNM Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingIntegrated
from gy
where TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement TNM Stage Grouping Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPretreatment,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingFinalPretreatment
from gy
where TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Tcategory Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.IntegratedStageTCategory' as TCategoryIntegratedStage,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TCategoryIntegratedStage
from gy
where TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Tcategory Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.FinalPreTreatmentTCategory' as TcategoryFinalPreTreatment,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TcategoryFinalPreTreatment
from gy
where TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreDiagnosis.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_81
where type = 'GY'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Non Primary Pathway Metastatic Site

Source column MetastaticSite. METASTATIC SITE (AT DIAGNOSIS)

MetastaticSite	measurement_concept_id	notes
01	0	Bone (Retired 1 July 2012)
02	0	Brain
03	0	Liver
04	0	Lung
05	0	Other metastatic site (Retired 1 July 2012)
06	0	Multiple metastatic sites (Retired 1 April 2018)
07	0	Unknown metastatic site
08	0	Skin
09	0	Distant Lymph Nodes
10	0	Bone (excluding Bone Marrow)
11	0	Bone marrow
12	0	Regional Lymph Nodes
98	0	Other metastatic site (not listed)
99	0	Other metastatic site (Retired 1 April 2018)
97	0	Not Applicable (Disease not spread)

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_81
where type = 'GY'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Ncategory Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.IntegratedStageNCategory' as NCategoryIntegratedStage,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NCategoryIntegratedStage
from gy
where NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Ncategory Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.FinalPreTreatmentNCategory' as NcategoryFinalPreTreatment,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NcategoryFinalPreTreatment
from gy
where NcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Mcategory Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.IntegratedStageMCategory' as MCategoryIntegratedStage,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    MCategoryIntegratedStage
from gy
where MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Mcategory Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with gy as (
    select
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.FinalPreTreatmentMCategory' as McategoryFinalPreTreatment,
        Record ->> '$.Gynaecological.GynaecologicalCore.GynaecologicalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'GY'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    McategoryFinalPreTreatment
from gy
where McategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 GY Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 CT Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

-- Query to extract Tumour Laterality for CT cancer area from COSD v9.
-- TumourLaterality is a categorical code (L, R, M, B) identifying the side of the body for the tumour.
-- Only valid laterality codes (L, R, M, B) are included; codes 8 (Not Applicable) and 9 (Not Known) are excluded.
-- TumourLaterality will be mapped to a measurement value concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'CT'
  and TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V9 CT Measurement TNM Stage Grouping Integrated

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

-- Query to extract TNM Stage Grouping (Integrated) for CT cancer area from COSD v9.
-- The TNM stage grouping classifies the combination of T, N, and M categories into stage groupings after treatment and/or after all available evidence.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TnmStageGroupingIntegrated will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'CT'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V9 CT Measurement TNM Stage Grouping Final Pretreatment

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

-- Query to extract TNM Stage Grouping (Final Pretreatment) for CT cancer area from COSD v9.
-- The TNM stage grouping classifies the combination of T, N, and M categories into stage groupings before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TnmStageGroupingFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CT'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 CT Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

-- Query to extract T Category (Integrated Stage) for CT cancer area from COSD v9.
-- The T category classifies the size and extent of the primary tumour after treatment and/or after all available evidence.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TCategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'CT'
  and TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 CT Measurement T Category Final Pretreatment

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

-- Query to extract T Category (Final Pretreatment) for CT cancer area from COSD v9.
-- The T category classifies the size and extent of the primary tumour before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TCategoryFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CT'
  and TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Primary Pathway/Diagnosis) for CT cancer area from COSD v9.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with CT as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CT'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from CT
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Non-Primary Pathway/Recurrence) for CT cancer area from COSD v9.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with CT as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CT'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from CT
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Non-Primary Pathway/Progression) for CT cancer area from COSD v9.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with CT as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CT'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from CT
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

-- Query to extract N Category (Integrated Stage) for CT cancer area from COSD v9.
-- The N category classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- NCategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'CT'
  and NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement N Category Final Pretreatment

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

-- Query to extract N Category (Final Pretreatment) for CT cancer area from COSD v9.
-- The N category classifies the absence or presence and extent of regional lymph node metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- NCategoryFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CT'
  and NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

-- Query to extract M Category (Integrated Stage) for CT cancer area from COSD v9.
-- The M category classifies the absence or presence of distant metastases after treatment and/or after all available evidence.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- MCategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'CT'
  and MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement M Category Final Pretreatment

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

-- Query to extract M Category (Final Pretreatment) for CT cancer area from COSD v9.
-- The M category classifies the absence or presence of distant metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- MCategoryFinalPretreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CT'
  and MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

-- Query to extract Grade of Differentiation (At Diagnosis) for CT cancer area from COSD v9.
-- GradeOfDifferentiationAtDiagnosis is a categorical code (G1-G4, GX) describing tumour differentiation.
-- GradeOfDifferentiationAtDiagnosis will be mapped to a measurement value concept in OMOP in a later step.
select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'CT'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CT Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

-- Query to extract Tumour Laterality for CT (CTYA) cancer area from COSD v8.
-- TumourLaterality is a categorical code (L, R, M, B) identifying the side of the body for the tumour.
-- MeasurementDate uses primary diagnosis date, falling back to non-primary diagnosis date.
-- TumourLaterality will be mapped to a measurement value concept in OMOP in a later step.
-- Only valid laterality codes (L, R, M, B) are included; codes 8 (Not Applicable) and 9 (Not Known) are excluded.
with CT as (
    select
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where type = 'CT'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from CT
where TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement TNM Stage Grouping Integrated

Source column TNMStageGroupingIntegrated. Lookup TNMCategory concepts.

TNMStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TNMStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

-- Query to extract TNM Stage Grouping (Integrated) for CT (CTYA) cancer area from COSD v8.
-- The TNM stage grouping classifies the combination of T, N, and M categories into stage groupings after treatment and/or after all available evidence.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TNMStageGroupingIntegrated will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.CTYA.CTYACore.CTYACoreStaging.IntegratedStageTNMStageGroupingDate',
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.CTYA.CTYACore.CTYACoreStaging.IntegratedStageTNMStageGrouping' as TNMStageGroupingIntegrated
from omop_staging.cosd_staging_81
where type = 'CT'
  and TNMStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement TNM Stage Grouping Final Pre Treatment Stage

Source column TNMStageGroupingFinalPreTreatment. Lookup TNMCategory concepts.

TNMStageGroupingFinalPreTreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TNMStageGroupingFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

-- Query to extract TNM Stage Grouping (Final Pretreatment) for CT (CTYA) cancer area from COSD v8.
-- The TNM stage grouping classifies the combination of T, N, and M categories into stage groupings before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TNMStageGroupingFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.CTYA.CTYACore.CTYACoreStaging.FinalPreTreatmentTNMStageGroupingDate',
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.CTYA.CTYACore.CTYACoreStaging.FinalPreTreatmentTNMStageGrouping' as TNMStageGroupingFinalPreTreatment
from omop_staging.cosd_staging_81
where type = 'CT'
  and TNMStageGroupingFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Tcategory Integrated Stage

Source column TcategoryIntegratedStage. Lookup TCategory concepts.

TcategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

-- Query to extract T Category (Integrated Stage) for CT (CTYA) cancer area from COSD v8.
-- The T category classifies the size and extent of the primary tumour after treatment and/or after all available evidence.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- TcategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.CTYA.CTYACore.CTYACoreStaging.IntegratedStageTNMStageGroupingDate',
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.CTYA.CTYACore.CTYACoreStaging.IntegratedStageTCategory' as TcategoryIntegratedStage
from omop_staging.cosd_staging_81
where type = 'CT'
  and TcategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Tcategory Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

-- Query to extract T Category (Final Pretreatment) for CT (CTYA) cancer area from COSD v8.
-- The T category classifies the size and extent of the primary tumour before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- TcategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.CTYA.CTYACore.CTYACoreStaging.FinalPreTreatmentTNMStageGroupingDate',
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.CTYA.CTYACore.CTYACoreStaging.FinalPreTreatmentTCategory' as TcategoryFinalPreTreatment
from omop_staging.cosd_staging_81
where type = 'CT'
  and TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

-- Query to extract Metastatic Site (Primary Pathway/Diagnosis) for CT (CTYA) cancer area from COSD v8.
-- MetastaticSite is a repeating field so unnest is used to normalise each site into its own row.
-- Code 97 (Not Applicable - Disease not spread) is excluded.
-- MetastaticSite will be mapped to a measurement value concept in OMOP in a later step.
with CT as (
    select distinct
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        unnest(
            [
                [ Record ->> '$.CTYA.CTYACore.CTYACoreDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.CTYA.CTYACore.CTYACoreDiagnosis.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'CT'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from CT
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Ncategory Integrated Stage

Source column NcategoryIntegratedStage. Lookup NCategory concepts.

NcategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

-- Query to extract N Category (Integrated Stage) for CT (CTYA) cancer area from COSD v8.
-- The N category classifies the absence or presence and extent of regional lymph node metastases after treatment and/or after all available evidence.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- NcategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.CTYA.CTYACore.CTYACoreStaging.IntegratedStageTNMStageGroupingDate',
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.CTYA.CTYACore.CTYACoreStaging.IntegratedStageNCategory' as NcategoryIntegratedStage
from omop_staging.cosd_staging_81
where type = 'CT'
  and NcategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Ncategory Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

-- Query to extract N Category (Final Pretreatment) for CT (CTYA) cancer area from COSD v8.
-- The N category classifies the absence or presence and extent of regional lymph node metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- NcategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.CTYA.CTYACore.CTYACoreStaging.FinalPreTreatmentTNMStageGroupingDate',
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.CTYA.CTYACore.CTYACoreStaging.FinalPreTreatmentNCategory' as NcategoryFinalPreTreatment
from omop_staging.cosd_staging_81
where type = 'CT'
  and NcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Mcategory Integrated Stage

Source column McategoryIntegratedStage. Lookup concepts.

McategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

-- Query to extract M Category (Integrated Stage) for CT (CTYA) cancer area from COSD v8.
-- The M category classifies the absence or presence of distant metastases after treatment and/or after all available evidence.
-- MeasurementDate falls back to diagnosis date if the integrated staging date is unavailable.
-- McategoryIntegratedStage will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.CTYA.CTYACore.CTYACoreStaging.IntegratedStageTNMStageGroupingDate',
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.CTYA.CTYACore.CTYACoreStaging.IntegratedStageMCategory' as McategoryIntegratedStage
from omop_staging.cosd_staging_81
where type = 'CT'
  and McategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Mcategory Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

-- Query to extract M Category (Final Pretreatment) for CT (CTYA) cancer area from COSD v8.
-- The M category classifies the absence or presence of distant metastases before treatment.
-- MeasurementDate falls back to diagnosis date if the staging date is unavailable.
-- McategoryFinalPreTreatment will be mapped to a measurement concept in OMOP in a later step.
select distinct
    Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.CTYA.CTYACore.CTYACoreStaging.FinalPreTreatmentTNMStageGroupingDate',
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis'
    ) as MeasurementDate,
    Record ->> '$.CTYA.CTYACore.CTYACoreStaging.FinalPreTreatmentMCategory' as McategoryFinalPreTreatment
from omop_staging.cosd_staging_81
where type = 'CT'
  and McategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Lactate Dehydrogenase Level Peak At Diagnosis

• Constant value set to 4012918. Lactate dehydrogenase measurement

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Lactate Dehydrogenase Level Normal Upper Limit

• Constant value set to 4012918. Lactate dehydrogenase measurement

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

-- Query to extract Grade of Differentiation (At Diagnosis) for CT (CTYA) cancer area from COSD v8.
-- GradeOfDifferentiation is a categorical code (G1-G4, GX) describing tumour differentiation.
-- MeasurementDate uses primary diagnosis date, falling back to non-primary diagnosis date.
-- GradeOfDifferentiation will be mapped to a measurement value concept in OMOP in a later step.
with CT as (
    select
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.CTYA.CTYACore.CTYACoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.CTYA.CTYACore.CTYACoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_81
    where type = 'CT'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    GradeOfDifferentiationAtDiagnosis
from CT
where GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CT Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD v9 CR Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'CR'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement TNM Category Final Pretreatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CR'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Tcategory Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'CR'
  and TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Tcategory Final Pretreatment Stage

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CR'
  and TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with cr as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CR'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from cr
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Non Primary Pathway Recurrence Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with cr as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CR'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from cr
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Non Primary Pathway Progression Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with cr as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CR'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from cr
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Ncategory Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'CR'
  and NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Ncategory Final Pretreatment Stage

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CR'
  and NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Mcategory Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'CR'
  and MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Mcategory Final Pretreatment Stage

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CR'
  and MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'CR'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD v9 CR Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from cr
where TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated,
        Record ->> '$.Core.CoreCore.CoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingIntegrated
from cr
where TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement TNM Category Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPretreatment,
        Record ->> '$.Core.CoreCore.CoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingFinalPretreatment
from cr
where TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Tcategory Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreStaging.IntegratedStageTCategory' as TCategoryIntegratedStage,
        Record ->> '$.Core.CoreCore.CoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TCategoryIntegratedStage
from cr
where TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Tcategory Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreStaging.FinalPreTreatmentTCategory' as TcategoryFinalPreTreatment,
        Record ->> '$.Core.CoreCore.CoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TcategoryFinalPreTreatment
from cr
where TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        unnest(
            [
                [Record ->> '$.Core.CoreCore.CoreDiagnosis.MetastaticSite.@code'],
                Record ->> '$.Core.CoreCore.CoreDiagnosis.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from cr
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Non Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    Record ->> '$.Core.CoreCore.CoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_81
where type = 'CR'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Ncategory Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreStaging.IntegratedStageNCategory' as NCategoryIntegratedStage,
        Record ->> '$.Core.CoreCore.CoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NCategoryIntegratedStage
from cr
where NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Ncategory Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreStaging.FinalPreTreatmentNCategory' as NcategoryFinalPreTreatment,
        Record ->> '$.Core.CoreCore.CoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NcategoryFinalPreTreatment
from cr
where NcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Mcategory Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreStaging.IntegratedStageMCategory' as MCategoryIntegratedStage,
        Record ->> '$.Core.CoreCore.CoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    MCategoryIntegratedStage
from cr
where MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Mcategory Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreStaging.FinalPreTreatmentMCategory' as McategoryFinalPreTreatment,
        Record ->> '$.Core.CoreCore.CoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    McategoryFinalPreTreatment
from cr
where McategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with cr as (
    select
        Record ->> '$.Core.CoreCore.CoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Core.CoreCore.CoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Core.CoreCore.CoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_81
    where type = 'CR'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    GradeOfDifferentiationAtDiagnosis
from cr
where GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V8 CR Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

select 
	distinct
	    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
	    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
	    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'CO'
  and (Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code') in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V9 Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
from omop_staging.cosd_staging_901
where type = 'CO'
  and TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Measurement TNM Category Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'CO'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'CO'
  and TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Measurement T Category Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TcategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'CO'
  and TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Measurement Synchronous Tumour Indicator

Source column SynchronousTumourIndicator. Lookup SynchronousTumour concepts.

SynchronousTumourIndicator	measurement_concept_id	notes
01	36768217	Cecum
02	36770601	Appendix
03	36768852	Ascending Colon
04	36768109	Hepatic Flexure
05	36770627	Transverse Colon
06	36769645	Splenic Flexure
07	36769819	Descending Colon
08	36770395	Sigmoid Colon
09	36768690	Rectosigmoid
10	36769244	Rectum

Notes

• OMOP Cancer Modifier Measurements

• NHS - Synchronous Tumour Colon location (at Diagnosis)

• SynchronousTumourIndicator An indication of whether there is a presence of synchronous tumours at a tumour site during a Cancer Care Spell. SYNCHRONOUS TUMOUR INDICATOR

select 
	distinct
	    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
	    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
	    Record ->> '$.PrimaryPathway.Diagnosis.DiagnosisColorectal.SynchronousTumourIndicator.@code' as SynchronousTumourIndicator
from omop_staging.cosd_staging_901
where type = 'CO'
  and SynchronousTumourIndicator is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Measurement Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS METASTATIC SITE (AT DIAGNOSIS)

with CO as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CO'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from CO
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 Measurement Non Primary Pathway Recurrence Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS METASTATIC SITE (AT DIAGNOSIS)

with CO as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CO'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from CO
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 Measurement Non Primary Pathway Progression Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS METASTATIC SITE (AT DIAGNOSIS)

with CO as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'CO'
)
select
    distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from CO
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
from omop_staging.cosd_staging_901
where type = 'CO'
  and NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Measurement N Category Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NcategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'CO'
  and NcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

select 
  distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
from omop_staging.cosd_staging_901
where Type = 'CO'
  and MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Measurement M Category Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select 
  distinct
    record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as McategoryFinalPreTreatment
from omop_staging.cosd_staging_901
where type = 'CO'
  and McategoryFinalPreTreatment is not null
	

Comment or raise an issue for this mapping.

COSD V9 Measurement Grade of Differentiation (At Diagnosis)

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select
    distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis,
from omop_staging.cosd_staging_901
where Type = 'CO'
  and GradeOfDifferentiationAtDiagnosis is not null
	

Comment or raise an issue for this mapping.

CosdV9MeasurementAdultComorbidityEvaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

with co as (
    select
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where Type = 'CO'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from co
where TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V8 Measurement Tumour Height Above Anal Verge

• Constant value set to 3029142. Distance from anal verge

Comment or raise an issue for this mapping.

COSD V8 Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings after treatment and/or after all available evidence has been collected during a Cancer Care Spell. TNM STAGE GROUPING (INTEGRATED)

with co as (
    select
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.IntegratedStageTNMStageGrouping' as TnmStageGroupingIntegrated,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'CO'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingIntegrated
from co
where TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Measurement TNM Category Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

with co as (
    select
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPretreatment,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where Type = 'CO'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingFinalPretreatment
from co
where TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour after treatment and/or after all available evidence has been collected during a Cancer Care Spell. T CATEGORY (INTEGRATED STAGE)

with co as (
    select
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.IntegratedStageTCategory' as TCategoryIntegratedStage,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'CO'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TCategoryIntegratedStage
from co
where TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Measurement T Category Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with co as (
    select
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.FinalPreTreatmentTCategory' as TcategoryFinalPreTreatment,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where Type = 'CO'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TcategoryFinalPreTreatment
from co
where TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Measurement Synchronous Tumour Indicator

Source column SynchronousTumourIndicator. Lookup SynchronousTumour concepts.

SynchronousTumourIndicator	measurement_concept_id	notes
01	36768217	Cecum
02	36770601	Appendix
03	36768852	Ascending Colon
04	36768109	Hepatic Flexure
05	36770627	Transverse Colon
06	36769645	Splenic Flexure
07	36769819	Descending Colon
08	36770395	Sigmoid Colon
09	36768690	Rectosigmoid
10	36769244	Rectum

Notes

• OMOP Cancer Modifier Measurements

• NHS - Synchronous Tumour Colon location (at Diagnosis)

• SynchronousTumourIndicator An indication of whether there is a presence of synchronous tumours at a tumour site during a Cancer Care Spell. SYNCHRONOUS TUMOUR INDICATOR

with co as (
    select
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreDiagnosis.ColorectalDiagnosis.SynchronousTumourColonLocation.@code' as SynchronousTumourIndicator
    from omop_staging.cosd_staging_81
    where Type = 'CO'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    SynchronousTumourIndicator
from co
where SynchronousTumourIndicator is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Measurement Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS METASTATIC SITE (AT DIAGNOSIS)

with co as (
select 
    Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    unnest(
      [
        [
          Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreDiagnosis.MetastaticSite.@code'
        ], 
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreDiagnosis.MetastaticSite[*].@code'
      ], recursive := true
    ) as MetastaticSite
from omop_staging.cosd_staging_81
where Type = 'CO'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from co
where MetastaticSite is not null
  and MetastaticSite != 97;
	

Comment or raise an issue for this mapping.

COSD V8 Measurement Non Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS METASTATIC SITE (AT DIAGNOSIS)

with co as (
    select distinct
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' ],
                Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreNonPrimaryCancerPathwayRoute.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'CO'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from co
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with CO as (
	select 
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.IntegratedStageNCategory' as NCategoryIntegratedStage,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
	from omop_staging.cosd_staging_81
	where Type = 'CO'
)
select distinct
	NhsNumber,
	coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	NCategoryIntegratedStage
from CO
where NCategoryIntegratedStage is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Measurement N Category Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with CO as (
	select 
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.FinalPreTreatmentNCategory' as NcategoryFinalPreTreatment,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
	from omop_staging.cosd_staging_81
	where Type = 'CO'
)
select distinct
	NhsNumber,
	coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	NcategoryFinalPreTreatment
from CO
where NcategoryFinalPreTreatment is not null;

	

Comment or raise an issue for this mapping.

COSD V8 Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with CO as (
	select 
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.IntegratedStageMCategory' as MCategoryIntegratedStage,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
	from omop_staging.cosd_staging_81
	where Type = 'CO'
)
select distinct
	NhsNumber,
	coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	MCategoryIntegratedStage
from CO
where MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Measurement M Category Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with CO as (
	select 
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.FinalPreTreatmentMCategory' as McategoryFinalPreTreatment,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
	from omop_staging.cosd_staging_81
	where Type = 'CO'
)
select distinct
	NhsNumber,
	coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
	McategoryFinalPreTreatment
from CO
where McategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Measurement Grade of Differentiation (At Diagnosis)

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with CO as (
	select 
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
		Record ->> '$.Colorectal.ColorectalCore.ColorectalCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
	from omop_staging.cosd_staging_81
	where Type = 'CO'
)
select distinct
	NhsNumber,
	coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
	GradeOfDifferentiationAtDiagnosis
from CO
where GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

CosdV8MeasurementAdultComorbidityEvaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality The laterality (side) of the tumour - Left (L), Right (R), Midline (M), or Bilateral (B). TUMOUR LATERALITY

select 
    distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'BR'
  and (Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code') in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement TNM Category Integrated Stage

Source column TnmStageGroupingIntegrated. Lookup TNMCategory concepts.

TnmStageGroupingIntegrated	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingIntegrated The TNM stage grouping (combined T, N, M categories) of the integrated stage. TNM STAGE GROUPING (INTEGRATED STAGE)

with BR as (
    select 
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        coalesce(
            Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
            Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
        ) as MeasurementDate,
        Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingIntegrated' as TnmStageGroupingIntegrated
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    MeasurementDate,
    TnmStageGroupingIntegrated
from BR
where TnmStageGroupingIntegrated is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement TNM Category Final Pre-Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment The TNM stage grouping (combined T, N, M categories) of the final pre-treatment stage. TNM STAGE GROUPING (FINAL PRETREATMENT)

with BR as (
    select 
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        coalesce(
            Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
            Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
        ) as MeasurementDate,
        Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    MeasurementDate,
    TnmStageGroupingFinalPretreatment
from BR
where TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage The T category (tumour size) of the integrated stage in TNM staging. T CATEGORY (INTEGRATED STAGE)

with BR as (
    select 
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        coalesce(
            Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
            Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
        ) as MeasurementDate,
        Record ->> '$.PrimaryPathway.Staging.TCategoryIntegratedStage' as TCategoryIntegratedStage
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    MeasurementDate,
    TCategoryIntegratedStage
from BR
where TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement T Category Final Pre-Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment The T category (tumour size) of the final pre-treatment stage in TNM staging. T CATEGORY (FINAL PRETREATMENT)

with BR as (
    select 
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        coalesce(
            Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
            Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
        ) as MeasurementDate,
        Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TcategoryFinalPreTreatment
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    MeasurementDate,
    TcategoryFinalPreTreatment
from BR
where TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS METASTATIC SITE (AT DIAGNOSIS)

with BR as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' ],
                Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    MetastaticSite
from BR
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement Non Primary Pathway Recurrence Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at recurrence diagnosis METASTATIC SITE (AT DIAGNOSIS)

with BR as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from BR
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement Non Primary Pathway Progression Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at progression diagnosis METASTATIC SITE (AT DIAGNOSIS)

with BR as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' ],
                Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression[*].MetastaticSite.@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from BR
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of regional lymph node metastasis after all information from treatment is available during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with BR as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        coalesce(
            Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
            Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
        ) as MeasurementDate,
        Record ->> '$.PrimaryPathway.Staging.NCategoryIntegratedStage' as NCategoryIntegratedStage
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    MeasurementDate,
    NCategoryIntegratedStage
from BR
where NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement N Category Final Pre-Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of regional lymph node metastasis before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRE-TREATMENT STAGE)

with BR as (
    select distinct
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        coalesce(
            Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
            Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
        ) as MeasurementDate,
        Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NcategoryFinalPreTreatment
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    MeasurementDate,
    NcategoryFinalPreTreatment
from BR
where NcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after treatment and/or after all available evidence has been collected during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with BR as (
    select 
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        coalesce(
            Record ->> '$.PrimaryPathway.Staging.StageDateIntegratedStage',
            Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
        ) as MeasurementDate,
        Record ->> '$.PrimaryPathway.Staging.MCategoryIntegratedStage' as MCategoryIntegratedStage
    from omop_staging.cosd_staging_901
    where Type = 'BR'
)
select distinct
    NhsNumber,
    MeasurementDate,
    MCategoryIntegratedStage
from BR
where MCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement M Category Final Pre-Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRE-TREATMENT STAGE)

with BR as (
    select 
        record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        coalesce(
            record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
            record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
        ) as MeasurementDate,
        record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as McategoryFinalPreTreatment
    from omop_staging.cosd_staging_901
    where type = 'BR'
)
select distinct
    NhsNumber,
    MeasurementDate,
    McategoryFinalPreTreatment
from BR
where McategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Breast Measurement Grade of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The grade of differentiation of the cancer at diagnosis, indicating how much the cancer cells differ from normal cells. GRADE OF DIFFERENTIATION AT DIAGNOSIS

with BR as (
    select
        Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
        Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_901
    where Type = 'BR'
)
select distinct
    NhsNumber,
    DateOfPrimaryDiagnosisClinicallyAgreed,
    GradeOfDifferentiationAtDiagnosis
from BR
where GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

CosdV9BreastMeasurementAdultComorbidityEvaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality The laterality of the tumour in relation to the midline of the body (Left, Right, Midline, Bilateral). TUMOUR LATERALITY

with br as (
    select
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from br
where TumourLaterality is not null
  and TumourLaterality in ('L','R','M','B');
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement TNM Category Final Pre Treatment Stage

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

with br as (
    select
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.FinalPreTreatmentTNMStageGrouping' as TnmStageGroupingFinalPretreatment,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TnmStageGroupingFinalPretreatment
from br
where TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement T Category Integrated Stage

Source column TCategoryIntegratedStage. Lookup TCategory concepts.

TCategoryIntegratedStage	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the extent of the primary tumour at a given point in a Cancer Care Spell. T CATEGORY (INTEGRATED)

with br as (
    select
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.IntegratedStageTCategory' as TCategoryIntegratedStage,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NhsNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TCategoryIntegratedStage
from br
where TCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement T Category Final Pre Treatment Stage

Source column TcategoryFinalPreTreatment. Lookup TCategory concepts.

TcategoryFinalPreTreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the extent of the primary tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

with br as (
    select
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.FinalPreTreatmentTCategory' as TcategoryFinalPreTreatment,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NhsNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    TcategoryFinalPreTreatment
from br
where TcategoryFinalPreTreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite The site of metastatic cancer on the Primary Cancer Pathway. METASTATIC SITE

with br as (
select 
    Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    unnest(
      [
        [
          Record ->> '$.Breast.BreastCore.BreastCoreDiagnosis.MetastaticSite.@code'
        ], 
        Record ->> '$.Breast.BreastCore.BreastCoreDiagnosis.MetastaticSite[*].@code'
      ], recursive := true
    ) as MetastaticSite
from omop_staging.cosd_staging_81
where Type = 'BR'
)
select distinct
    NhsNumber,
    ClinicalDateCancerDiagnosis,
    MetastaticSite
from br
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement Non Primary Pathway Metastasis

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite The site of metastatic cancer on the Non-Primary Cancer Pathway. METASTATIC SITE

with br as (
    select distinct
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        unnest(
            [
                [ Record ->> '$.Breast.BreastCore.BreastCoreNonPrimaryCancerPathwayRoute.MetastaticSite.@code' ],
                Record ->> '$.Breast.BreastCore.BreastCoreNonPrimaryCancerPathwayRoute.MetastaticSite[*].@code'
            ],
            recursive := true
        ) as MetastaticSite
    from omop_staging.cosd_staging_81
    where type = 'BR'
)
select distinct
    NhsNumber,
    DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    MetastaticSite
from br
where MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement N Category Integrated Stage

Source column NCategoryIntegratedStage. Lookup NCategory concepts.

NCategoryIntegratedStage	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the presence or absence of regional lymph node metastases after all information from treatment is available during a Cancer Care Spell. N CATEGORY (INTEGRATED STAGE)

with BR as (
    select 
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.IntegratedStageNCategory' as NCategoryIntegratedStage,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NHSNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NCategoryIntegratedStage
from BR
where NCategoryIntegratedStage is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement N Category Final Pre Treatment Stage

Source column NcategoryFinalPreTreatment. Lookup NCategory concepts.

NcategoryFinalPreTreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NcategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the presence or absence of regional lymph node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

with BR as (
    select 
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.FinalPreTreatmentNCategory' as NcategoryFinalPreTreatment,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NHSNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    NcategoryFinalPreTreatment
from BR
where NcategoryFinalPreTreatment is not null
and NHSNumber is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement M Category Integrated Stage

Source column MCategoryIntegratedStage. Lookup concepts.

MCategoryIntegratedStage	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryIntegratedStage Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases after all information from treatment is available during a Cancer Care Spell. M CATEGORY (INTEGRATED STAGE)

with BR as (
    select 
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.IntegratedStageMCategory' as MCategoryIntegratedStage,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.IntegratedStageTNMStageGroupingDate' as StageDateIntegratedStage
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NHSNumber,
    coalesce(StageDateIntegratedStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    MCategoryIntegratedStage
from BR
where MCategoryIntegratedStage is not null
and NHSNumber is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement M Category Final Pre Treatment Stage

Source column McategoryFinalPreTreatment. Lookup concepts.

McategoryFinalPreTreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• McategoryFinalPreTreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

with BR as (
    select 
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.FinalPreTreatmentMCategory' as McategoryFinalPreTreatment,
        Record ->> '$.Breast.BreastCore.BreastCoreStaging.FinalPreTreatmentTNMStageGroupingDate' as StageDateFinalPretreatmentStage
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NHSNumber,
    coalesce(StageDateFinalPretreatmentStage, ClinicalDateCancerDiagnosis) as MeasurementDate,
    McategoryFinalPreTreatment
from BR
where McategoryFinalPreTreatment is not null
and NHSNumber is not null;
	

Comment or raise an issue for this mapping.

COSD V8 Breast Measurement Grade of Differentiation (At Diagnosis)

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis The definitive grade of the Tumour at the time of PATIENT DIAGNOSIS. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with BR as (
    select 
        Record ->> '$.Breast.BreastCore.BreastCoreLinkagePatientId.NHSNumber.@extension' as NHSNumber,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.Breast.BreastCore.BreastCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.Breast.BreastCore.BreastCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_81
    where Type = 'BR'
)
select distinct
    NHSNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    GradeOfDifferentiationAtDiagnosis
from BR
where GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

CosdV8BreastMeasurementAdultComorbidityEvaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.

COSD V9 BA Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
from omop_staging.cosd_staging_901
where type = 'BA'
  and TumourLaterality in ('L', 'R', 'M', 'B');
	

Comment or raise an issue for this mapping.

COSD V9 BA Measurement Tnm Stage Grouping Final Pretreatment

Source column TnmStageGroupingFinalPretreatment. Lookup TNMCategory concepts.

TnmStageGroupingFinalPretreatment	measurement_concept_id	notes
1	1635812	IRS-modified TNM stage 1
I	1635812	IRS-modified TNM stage 1
1a	1635812	IRS-modified TNM stage 1
IA	1635812	IRS-modified TNM stage 1
1a1	1633843	Stage 1A1
IA1	1633843	Stage 1A1
1a2	1634275	Stage 1A2
IA2	1634275	Stage 1A2
1a3	1633775	Stage 1A3
IA3	1633775	Stage 1A3
1b	1635812	IRS-modified TNM stage 1
IB	1635812	IRS-modified TNM stage 1
2	1635007	IRS-modified TNM stage 2
II	1635007	IRS-modified TNM stage 2
2a	1635007	IRS-modified TNM stage 2
IIA	1635007	IRS-modified TNM stage 2
2b	1635007	IRS-modified TNM stage 2
IIB	1635007	IRS-modified TNM stage 2
2c	1635007	IRS-modified TNM stage 2
IIC	1635007	IRS-modified TNM stage 2
3	1633995	IRS-modified TNM stage 3
III	1633995	IRS-modified TNM stage 3
3a	1633995	IRS-modified TNM stage 3
IIIA	1633995	IRS-modified TNM stage 3
3b	1633995	IRS-modified TNM stage 3
IIIB	1633995	IRS-modified TNM stage 3
3c	1633995	IRS-modified TNM stage 3
IIIC	1633995	IRS-modified TNM stage 3
4	1634737	IRS-modified TNM stage 4
IV	1634737	IRS-modified TNM stage 4
4a	1634737	IRS-modified TNM stage 4
IVA	1634737	IRS-modified TNM stage 4
4b	1634737	IRS-modified TNM stage 4
IVB	1634737	IRS-modified TNM stage 4
4c	1634737	IRS-modified TNM stage 4
IVC	1634737	IRS-modified TNM stage 4

Notes

• OMOP Laterality

• TnmStageGroupingFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the combination of Tumour, node and metastases into stage groupings before treatment during a Cancer Care Spell. TNM STAGE GROUPING (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TnmStageGroupingFinalPretreatment' as TnmStageGroupingFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'BA'
  and TnmStageGroupingFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 BA Measurement T Category Final Pretreatment

Source column TCategoryFinalPretreatment. Lookup TCategory concepts.

TCategoryFinalPretreatment	measurement_concept_id	notes
0	1634213	AJCC/UICC T0 Category
1	1635564	AJCC/UICC T1 Category
1a	1633880	AJCC/UICC T1a Category
1b	1633921	AJCC/UICC T1b Category
1c	1633529	AJCC/UICC T1c Category
1d	1634100	AJCC/UICC T1d Category
2	1635562	AJCC/UICC T2 Category
2a	1635327	AJCC/UICC T2a Category
2b	1633593	AJCC/UICC T2b Category
2c	1635270	AJCC/UICC T2c Category
2d	1633678	AJCC/UICC T2d Category
3	1634376	AJCC/UICC T3 Category
3a	1633771	AJCC/UICC T3a Category
3b	1634980	AJCC/UICC T3b Category
3c	1633360	AJCC/UICC T3c Category
3d	1635625	AJCC/UICC T3d Category
3e	1634730	AJCC/UICC T3e Category
4	1634654	AJCC/UICC T4 Category
4a	1635222	AJCC/UICC T4a Category
4b	1634436	AJCC/UICC T4b Category
4c	1635526	AJCC/UICC T4c Category
4d	1633909	AJCC/UICC T4d Category
4e	1634193	AJCC/UICC T4e Category
X	1635682	AJCC/UICC TX Category

Notes

• OMOP Laterality

• TCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the size and extent of the primary Tumour before treatment during a Cancer Care Spell. T CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.TCategoryFinalPretreatment' as TCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'BA'
  and TCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 BA Measurement Primary Pathway Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.MetastaticTypeAndSiteDiagnosis.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_901
where type = 'BA'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 BA Measurement Non Primary Pathway Recurrence Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    Record ->> '$.NonPrimaryPathway.Recurrence.MetastaticTypeAndSiteRecurrence.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_901
where type = 'BA'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 BA Measurement Non Primary Pathway Progression Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.NonPrimaryPathway.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
    Record ->> '$.NonPrimaryPathway.Progression.MetastaticTypeAndSiteProgression.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_901
where type = 'BA'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V9 BA Measurement N Category Final Pretreatment

Source column NCategoryFinalPretreatment. Lookup NCategory concepts.

NCategoryFinalPretreatment	measurement_concept_id	notes
0	1633440	AJCC/UICC N0 Category
0a	1633621	AJCC/UICC N0a Category
0b	1635244	AJCC/UICC N0b Category
1	1634434	AJCC/UICC N1 Category
1a	1633735	AJCC/UICC N1a Category
1b	1635130	AJCC/UICC N1b Category
1c	1634620	AJCC/UICC N1c Category
2	1634119	AJCC/UICC N2 Category
2a	1635644	AJCC/UICC N2a Category
2b	1634134	AJCC/UICC N2b Category
2c	1634080	AJCC/UICC N2c Category
3	1635320	AJCC/UICC N3 Category
3a	1635590	AJCC/UICC N3a Category
3b	1633422	AJCC/UICC N3b Category
3c	1634735	AJCC/UICC N3c Category
4	1635445	AJCC/UICC N4 Category
X	1633885	AJCC/UICC NX Category

Notes

• OMOP Laterality

• NCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence and extent of regional Lymph Node metastases before treatment during a Cancer Care Spell. N CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.NCategoryFinalPretreatment' as NCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'BA'
  and NCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 BA Measurement M Category Final Pretreatment

Source column MCategoryFinalPretreatment. Lookup concepts.

MCategoryFinalPretreatment	measurement_concept_id	notes
0	1635624	AJCC/UICC M0 Category
1	1635142	AJCC/UICC M1 Category
1a	1635100	AJCC/UICC M1a Category
1b	1634463	AJCC/UICC M1b Category
1c	1635519	AJCC/UICC M1c Category
1d	1634064	AJCC/UICC M1d Category
X	1633547	AJCC/UICC MX Category

Notes

• OMOP Laterality

• MCategoryFinalPretreatment Is the code, using a TNM CODING EDITION, which classifies the absence or presence of distant metastases before treatment during a Cancer Care Spell. M CATEGORY (FINAL PRETREATMENT)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    coalesce(
        Record ->> '$.PrimaryPathway.Staging.StageDateFinalPretreatmentStage',
        Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed'
    ) as MeasurementDate,
    Record ->> '$.PrimaryPathway.Staging.MCategoryFinalPretreatment' as MCategoryFinalPretreatment
from omop_staging.cosd_staging_901
where type = 'BA'
  and MCategoryFinalPretreatment is not null;
	

Comment or raise an issue for this mapping.

COSD V9 BA Measurement Grade Of Differentiation At Diagnosis

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

select distinct
    Record ->> '$.LinkagePatientId.NhsNumber.@extension' as NhsNumber,
    Record ->> '$.PrimaryPathway.LinkageDiagnosticDetails.DateOfPrimaryDiagnosisClinicallyAgreed' as DateOfPrimaryDiagnosisClinicallyAgreed,
    Record ->> '$.PrimaryPathway.Diagnosis.GradeOfDifferentiationAtDiagnosis.@code' as GradeOfDifferentiationAtDiagnosis
from omop_staging.cosd_staging_901
where type = 'BA'
  and GradeOfDifferentiationAtDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V8 BA Measurement Tumour Laterality

Source column TumourLaterality. Lookup TumourLaterality concepts.

TumourLaterality	measurement_concept_id	notes
L	36770232	Left
R	36770058	Right
M	36769853	Midline
B	36770109	Bilateral

Notes

• OMOP Laterality

• NHS - Tumour Laterality

• TumourLaterality Identifies the side of the body for a Tumour relating to paired organs within a PATIENT. TUMOUR LATERALITY

with BA as (
    select
        Record ->> '$.CNS.CNSCore.CNSCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.CNS.CNSCore.CNSCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.CNS.CNSCore.CNSCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.CNS.CNSCore.CNSCoreLinkageDiagnosticDetails.TumourLaterality.@code' as TumourLaterality
    from omop_staging.cosd_staging_81
    where type = 'BA'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    TumourLaterality
from BA
where TumourLaterality is not null
  and TumourLaterality in ('L', 'R', 'M', 'B');
	

Comment or raise an issue for this mapping.

COSD V8 BA Measurement Metastatic Site

Source column MetastaticSite. Lookup MetastasisSite concepts.

MetastaticSite	measurement_concept_id	notes
01	36769301	Metastasis to bone
02	36768862	Metastasis to brain
03	36770544	Metastasis to liver
04	36770283	Metastasis to lung
07	36769180	Metastasis to the Unknown Site
08	35225673	Metastasis to skin
09	36769243	Distant spread to lymph node
10	36769301	Metastasis to bone
11	35226074	Metastasis to bone marrow
12	36769269	Regional spread to lymph node
98	36769180	Metastasis
99	36769180	Metastasis

Notes

• OMOP Metastasis

• NHS - Metastasis

• MetastaticSite Is the site of the metastatic disease at PATIENT DIAGNOSIS. METASTATIC SITE (AT DIAGNOSIS)

select distinct
    Record ->> '$.CNS.CNSCore.CNSCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
    Record ->> '$.CNS.CNSCore.CNSCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
    Record ->> '$.CNS.CNSCore.CNSCoreDiagnosis.MetastaticSite.@code' as MetastaticSite
from omop_staging.cosd_staging_81
where type = 'BA'
  and MetastaticSite is not null
  and MetastaticSite != '97';
	

Comment or raise an issue for this mapping.

COSD V8 BA Measurement Grade Of Differentiation

Source column GradeOfDifferentiationAtDiagnosis. Lookup GradeDifferentiation concepts.

GradeOfDifferentiationAtDiagnosis	measurement_concept_id	notes
GX	0	GX grade
G1	36768162	Grade 1: Well differentiated
G2	36770626	Grade 2: Moderately differentiated
G3	36769666	Grade 3: Poorly differentiated
G4	36769737	Grade 4: Undifferentiated

Notes

• OMOP Grade Differentiation

• NHS - Grade of Differentiation (At Diagnosis)

• GradeOfDifferentiationAtDiagnosis Definitive grade of the tumour at the time of patient diagnosis during a cancer care spell. GRADE OF DIFFERENTIATION (AT DIAGNOSIS)

with BA as (
    select
        Record ->> '$.CNS.CNSCore.CNSCoreLinkagePatientId.NHSNumber.@extension' as NhsNumber,
        Record ->> '$.CNS.CNSCore.CNSCoreLinkageDiagnosticDetails.ClinicalDateCancerDiagnosis' as ClinicalDateCancerDiagnosis,
        Record ->> '$.CNS.CNSCore.CNSCoreLinkageDiagnosticDetails.DateOfNonPrimaryCancerDiagnosisClinicallyAgreed' as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
        Record ->> '$.CNS.CNSCore.CNSCoreDiagnosis.DiagnosisGradeOfDifferentiation.@code' as GradeOfDifferentiationAtDiagnosis
    from omop_staging.cosd_staging_81
    where type = 'BA'
)
select distinct
    NhsNumber,
    coalesce(ClinicalDateCancerDiagnosis, DateOfNonPrimaryCancerDiagnosisClinicallyAgreed) as MeasurementDate,
    GradeOfDifferentiationAtDiagnosis
from BA
where GradeOfDifferentiationAtDiagnosis is not null
  and GradeOfDifferentiationAtDiagnosis != ''
	

Comment or raise an issue for this mapping.

COSD V8 BA Measurement Adult Comorbidity Evaluation

• Constant value set to 40488785. Adult comorbidity evaluation-27

Comment or raise an issue for this mapping.