condition_start_date

Cosd V8 Condition Occurrence Primary Diagnosis

Source column DiagnosisDate. Converts text to dates.

DiagnosisDate DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED) is the date the Primary Cancer was confirmed or the Primary Cancer diagnosis was agreed. DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED), DATE OF NON PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED)

;with XMLNAMESPACES('http://www.datadictionary.nhs.uk/messages/COSD-v8-1' AS COSD),
    CosdRecords as ( 
    select
            T.staging.value('(Id/@root)[1]', 'uniqueidentifier') as Id,
            T.staging.query('*[local-name() != "Id"][1]/*[1]') as Node -- Select the first inner element of the element that is not called Id.
    from omop_staging.cosd_staging
    cross apply content.nodes('COSD:COSD/*') as T(staging)
    where T.staging.exist('Id/@root') = 1
            and Content.value('namespace-uri((/*:COSD)[1])','nvarchar(max)') = 'http://www.datadictionary.nhs.uk/messages/COSD-v8-1'
            and substring (FileName, 15, 2) = 'CO'
), CO as (
	select 
        Id,
        Node,
        Node.value('(ColorectalCore/ColorectalCoreLinkagePatientId/NHSNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
        Node.value('(ColorectalCore/ColorectalCoreLinkageDiagnosticDetails/ClinicalDateCancerDiagnosis)[1]', 'varchar(max)') as DiagnosisDate,
        Node.value('(ColorectalCore/ColorectalCoreLinkageDiagnosticDetails/DateOfNonPrimaryCancerDiagnosisClinicallyAgreed)[1]', 'varchar(max)') as NonPrimaryDiagnosisDate,
        Node.value('(ColorectalCore/ColorectalCoreDiagnosis/MorphologyICDODiagnosis/@code)[1]', 'varchar(max)') as CancerHistology,
        Node.value('(ColorectalCore/ColorectalCoreDiagnosis/TopographyICDO/@code)[1]', 'varchar(max)') as CancerTopography,
        Node.value('(ColorectalCore/ColorectalCoreDiagnosis/BasisOfCancerDiagnosis/@code)[1]', 'varchar(max)') as BasisOfDiagnosisCancer,
        Node.value('(ColorectalCore/ColorectalCoreLinkageDiagnosticDetails/PrimaryDiagnosis/@code)[1]', 'varchar(max)') as CancerDiagnosis
	from CosdRecords        
)
select 
	distinct
		NhsNumber,
		coalesce (DiagnosisDate, NonPrimaryDiagnosisDate) as DiagnosisDate,
		BasisOfDiagnosisCancer,
		CancerDiagnosis
from CO
where NhsNumber is not null and
	(
		DiagnosisDate is not null or 
		NonPrimaryDiagnosisDate is not null
	);
	

Comment or raise an issue for this mapping.

Cosd V8 Condition Occurrence Primary Diagnosis Histology Topography

Source column DiagnosisDate. Converts text to dates.

DiagnosisDate DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED) is the date the Primary Cancer was confirmed or the Primary Cancer diagnosis was agreed. DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED), DATE OF NON PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED)

;with XMLNAMESPACES('http://www.datadictionary.nhs.uk/messages/COSD-v8-1' AS COSD),
    CosdRecords as ( 
    select
            T.staging.value('(Id/@root)[1]', 'uniqueidentifier') as Id,
            T.staging.query('*[local-name() != "Id"][1]/*[1]') as Node -- Select the first inner element of the element that is not called Id.
    from omop_staging.cosd_staging
    cross apply content.nodes('COSD:COSD/*') as T(staging)
    where T.staging.exist('Id/@root') = 1
            and Content.value('namespace-uri((/*:COSD)[1])','nvarchar(max)') = 'http://www.datadictionary.nhs.uk/messages/COSD-v8-1'
            and substring (FileName, 15, 2) = 'CO'
), CO as (
	select 
        Id,
        Node,
        Node.value('(ColorectalCore/ColorectalCoreLinkagePatientId/NHSNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
        Node.value('(ColorectalCore/ColorectalCoreLinkageDiagnosticDetails/ClinicalDateCancerDiagnosis)[1]', 'varchar(max)') as DiagnosisDate,
        Node.value('(ColorectalCore/ColorectalCoreLinkageDiagnosticDetails/DateOfNonPrimaryCancerDiagnosisClinicallyAgreed)[1]', 'varchar(max)') as NonPrimaryDiagnosisDate,
        Node.value('(ColorectalCore/ColorectalCoreDiagnosis/MorphologyICDODiagnosis/@code)[1]', 'varchar(max)') as CancerHistology,
        Node.value('(ColorectalCore/ColorectalCoreDiagnosis/TopographyICDO/@code)[1]', 'varchar(max)') as CancerTopography,
        Node.value('(ColorectalCore/ColorectalCoreDiagnosis/BasisOfCancerDiagnosis/@code)[1]', 'varchar(max)') as BasisOfDiagnosisCancer,
        Node.value('(ColorectalCore/ColorectalCoreLinkageDiagnosticDetails/PrimaryDiagnosis/@code)[1]', 'varchar(max)') as CancerDiagnosis
	from CosdRecords        
)
select 
	distinct
		NhsNumber,
		coalesce (DiagnosisDate, NonPrimaryDiagnosisDate) as DiagnosisDate,
		BasisOfDiagnosisCancer,
		CancerHistology,
		CancerTopography
from CO
where NhsNumber is not null and
	(
		DiagnosisDate is not null or 
		NonPrimaryDiagnosisDate is not null
	)
	and (CancerHistology is not null and CancerTopography is not null)
	

Comment or raise an issue for this mapping.

COSD V9 Condition Occurrence Recurrence

Source column DateOfPrimaryDiagnosisClinicallyAgreed. Converts text to dates.

DateOfPrimaryDiagnosisClinicallyAgreed DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED) is the date the Primary Cancer was confirmed or the Primary Cancer diagnosis was agreed. DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED)

;with 
    XMLNAMESPACES('http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1' AS COSD901),
    CosdRecords as ( 

    select
            T.staging.value('(Id/@root)[1]', 'uniqueidentifier') as Id,
            T.staging.query('.') as Node
    from omop_staging.cosd_staging
    cross apply content.nodes('COSD901:COSD/*') as T(staging)
    where T.staging.exist('Id/@root') = 1
            and Content.value('namespace-uri((/*:COSD)[1])','nvarchar(max)') = 'http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1'
            and substring (FileName, 15, 2) = 'CO'
), CO as (
	select
		Id,
		Node,
		Node.value('(ColorectalRecord/LinkagePatientId/NhsNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
		Node.value('(ColorectalRecord/PrimaryPathway/LinkageDiagnosticDetails/DateOfPrimaryDiagnosisClinicallyAgreed)[1]', 'varchar(max)') as DateOfPrimaryDiagnosisClinicallyAgreed,
		Node.value('(ColorectalRecord/PrimaryPathway/Diagnosis/DiagnosisAdditionalItems/SecondaryDiagnosisIcd/@code)[1]', 'varchar(max)') as SecondaryDiagnosis
	from CosdRecords
)
select
	NhsNumber,
	DateOfPrimaryDiagnosisClinicallyAgreed,
	max (SecondaryDiagnosis) as SecondaryDiagnosis
from CO
where DateOfPrimaryDiagnosisClinicallyAgreed is not null
	and SecondaryDiagnosis is not null
group by NhsNumber, DateOfPrimaryDiagnosisClinicallyAgreed;

	

Comment or raise an issue for this mapping.

COSD V9 Condition Occurrence Recurrence

Source column DateOfNonPrimaryCancerDiagnosisClinicallyAgreed. Converts text to dates.

DateOfNonPrimaryCancerDiagnosisClinicallyAgreed DATE OF NON PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED) is the date where the Non Primary Cancer PATIENT DIAGNOSIS was confirmed or agreed. DATE OF NON PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED)

;with 
    XMLNAMESPACES('http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1' AS COSD901),
    CosdRecords as ( 

    select
            T.staging.value('(Id/@root)[1]', 'uniqueidentifier') as Id,
            T.staging.query('.') as Node
    from omop_staging.cosd_staging
    cross apply content.nodes('COSD901:COSD/*') as T(staging)
    where T.staging.exist('Id/@root') = 1
            and Content.value('namespace-uri((/*:COSD)[1])','nvarchar(max)') = 'http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1'
            and substring (FileName, 15, 2) = 'CO'
), CO as (
	select
		Id,
		Node,
		Node.value('(ColorectalRecord/LinkagePatientId/NhsNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
		Node.value('(ColorectalRecord/NonPrimaryPathway/DateOfNonPrimaryCancerDiagnosisClinicallyAgreed)[1]', 'varchar(max)') as DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
		Node.value('(ColorectalRecord/NonPrimaryPathway/Recurrence/OriginalPrimaryDiagnosisIcd/@code)[1]', 'varchar(max)') as NonPrimaryRecurrenceOriginalDiagnosis
	from CosdRecords
)
select 
	distinct 
        NhsNumber,
        DateOfNonPrimaryCancerDiagnosisClinicallyAgreed,
		NonPrimaryRecurrenceOriginalDiagnosis
from CO
where NonPrimaryRecurrenceOriginalDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Condition Occurrence Progression

Source column NonPrimaryDiagnosisDate. Converts text to dates.

NonPrimaryDiagnosisDate DATE OF NON PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED) is the date where the Non Primary Cancer PATIENT DIAGNOSIS was confirmed or agreed. DATE OF NON PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED)

;with 
    XMLNAMESPACES('http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1' AS COSD901),
    CosdRecords as ( 

    select
            T.staging.value('(Id/@root)[1]', 'uniqueidentifier') as Id,
            T.staging.query('.') as Node
    from omop_staging.cosd_staging
    cross apply content.nodes('COSD901:COSD/*') as T(staging)
    where T.staging.exist('Id/@root') = 1
            and Content.value('namespace-uri((/*:COSD)[1])','nvarchar(max)') = 'http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1'
            and substring (FileName, 15, 2) = 'CO'
), CO as (
	select
		Id,
		Node,
		Node.value('(ColorectalRecord/LinkagePatientId/NhsNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
		Node.value('(ColorectalRecord/NonPrimaryPathway/DateOfNonPrimaryCancerDiagnosisClinicallyAgreed)[1]', 'varchar(max)') as NonPrimaryDiagnosisDate,
		Node.value('(ColorectalRecord/NonPrimaryPathway/Progression/ProgressionIcd/@code)[1]', 'varchar(max)') as NonPrimaryProgressionOriginalDiagnosis
	from CosdRecords
)
select 
	distinct 
        NhsNumber,
        NonPrimaryDiagnosisDate,
		NonPrimaryProgressionOriginalDiagnosis
from CO
where NonPrimaryProgressionOriginalDiagnosis is not null;
	

Comment or raise an issue for this mapping.

COSD V9 Condition Occurrence Primary Diagnosis

Source column DateOfPrimaryDiagnosisClinicallyAgreed. Converts text to dates.

DateOfPrimaryDiagnosisClinicallyAgreed DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED) is the date the Primary Cancer was confirmed or the Primary Cancer diagnosis was agreed. DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED)

;with 
    XMLNAMESPACES('http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1' AS COSD901),
    CosdRecords as ( 

    select
            T.staging.value('(Id/@root)[1]', 'uniqueidentifier') as Id,
            T.staging.query('.') as Node
    from omop_staging.cosd_staging
    cross apply content.nodes('COSD901:COSD/*') as T(staging)
    where T.staging.exist('Id/@root') = 1
            and Content.value('namespace-uri((/*:COSD)[1])','nvarchar(max)') = 'http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1'
            and substring (FileName, 15, 2) = 'CO'
), CO as (
	select
		Id,
		Node,
		Node.value('(ColorectalRecord/LinkagePatientId/NhsNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
		Node.value('(ColorectalRecord/PrimaryPathway/LinkageDiagnosticDetails/DateOfPrimaryDiagnosisClinicallyAgreed)[1]', 'varchar(max)') as DateOfPrimaryDiagnosisClinicallyAgreed,
		Node.value('(ColorectalRecord/PrimaryPathway/Diagnosis/MorphologyIcd-o-3/@code)[1]', 'varchar(max)') as CancerHistology,
		Node.value('(ColorectalRecord/PrimaryPathway/Diagnosis/TopographyIcd-o-3/@code)[1]', 'varchar(max)') as CancerTopography,
		Node.value('(ColorectalRecord/PrimaryPathway/Diagnosis/BasisOfDiagnosisCancer/@code)[1]', 'varchar(max)') as BasisOfDiagnosisCancer,
		Node.value('(ColorectalRecord/PrimaryPathway/LinkageDiagnosticDetails/PrimaryDiagnosisIcd/@code)[1]', 'varchar(max)') as CancerDiagnosis
	from CosdRecords
)
select
	NhsNumber,
	DateOfPrimaryDiagnosisClinicallyAgreed,
	max(BasisOfDiagnosisCancer) as BasisOfDiagnosisCancer,
	CancerDiagnosis
from CO
where DateOfPrimaryDiagnosisClinicallyAgreed is not null
group by NhsNumber, DateOfPrimaryDiagnosisClinicallyAgreed, CancerDiagnosis;
	

Comment or raise an issue for this mapping.

COSD V9 Condition Occurrence Primary Diagnosis Histology Topography

Source column DateOfPrimaryDiagnosisClinicallyAgreed. Converts text to dates.

DateOfPrimaryDiagnosisClinicallyAgreed DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED) is the date the Primary Cancer was confirmed or the Primary Cancer diagnosis was agreed. DATE OF PRIMARY CANCER DIAGNOSIS (CLINICALLY AGREED)

;with 
    XMLNAMESPACES('http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1' AS COSD901),
    CosdRecords as ( 

    select
            T.staging.value('(Id/@root)[1]', 'uniqueidentifier') as Id,
            T.staging.query('.') as Node
    from omop_staging.cosd_staging
    cross apply content.nodes('COSD901:COSD/*') as T(staging)
    where T.staging.exist('Id/@root') = 1
            and Content.value('namespace-uri((/*:COSD)[1])','nvarchar(max)') = 'http://www.datadictionary.nhs.uk/messages/COSD-v9-0-1'
            and substring (FileName, 15, 2) = 'CO'
), CO as (
	select
		Id,
		Node,
		Node.value('(ColorectalRecord/LinkagePatientId/NhsNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
		Node.value('(ColorectalRecord/PrimaryPathway/LinkageDiagnosticDetails/DateOfPrimaryDiagnosisClinicallyAgreed)[1]', 'varchar(max)') as DateOfPrimaryDiagnosisClinicallyAgreed,
		Node.value('(ColorectalRecord/PrimaryPathway/Diagnosis/MorphologyIcd-o-3/@code)[1]', 'varchar(max)') as CancerHistology,
		Node.value('(ColorectalRecord/PrimaryPathway/Diagnosis/TopographyIcd-o-3/@code)[1]', 'varchar(max)') as CancerTopography,
		Node.value('(ColorectalRecord/PrimaryPathway/Diagnosis/BasisOfDiagnosisCancer/@code)[1]', 'varchar(max)') as BasisOfDiagnosisCancer,
		Node.value('(ColorectalRecord/PrimaryPathway/LinkageDiagnosticDetails/PrimaryDiagnosisIcd/@code)[1]', 'varchar(max)') as CancerDiagnosis
	from CosdRecords
)
select
	distinct
		NhsNumber,
		DateOfPrimaryDiagnosisClinicallyAgreed,
		BasisOfDiagnosisCancer,
		CancerHistology,
		CancerTopography
from CO
where DateOfPrimaryDiagnosisClinicallyAgreed is not null
	and CancerHistology is not null
	and CancerTopography is not null;
	

Comment or raise an issue for this mapping.

CDS Condition Occurrence

Source column CDSActivityDate. Converts text to dates.

CDSActivityDate Event date CDS ACTIVITY DATE

select
	distinct
		d.DiagnosisCode,
		line01.RecordConnectionIdentifier,
		line01.NHSNumber,
		line01.CDSActivityDate
from omop_staging.cds_diagnosis d
	inner join omop_staging.cds_line01 line01
		on d.MessageId = line01.MessageId
where line01.NHSNumber is not null;
	

Comment or raise an issue for this mapping.