procedure_source_concept_id

SUS Outpatient Procedure Occurrence

Source column PrimaryProcedure. Resolve OPCS4 codes to OMOP concepts. If code cannot be mapped, map using the parent code.

		select
		distinct
		op.GeneratedRecordIdentifier,
		op.NHSNumber,
		op.AppointmentDate,
		p.ProcedureOPCS as PrimaryProcedure
		from omop_staging.sus_OP op
		inner join omop_staging.sus_OP_OPCSProcedure p
		on op.MessageId = p.MessageId
		where NHSNumber is not null

Comment or raise an issue for this mapping.

SUS APC Procedure Occurrence

Source column PrimaryProcedure. Resolve OPCS4 codes to OMOP concepts. If code cannot be mapped, map using the parent code.

select
	distinct
		apc.GeneratedRecordIdentifier,
		apc.NHSNumber,
		p.ProcedureDateOPCS as PrimaryProcedureDate,
		p.ProcedureOPCS as PrimaryProcedure
from omop_staging.sus_APC apc
	inner join omop_staging.sus_OPCSProcedure p
		on apc.MessageId = p.MessageId
where NHSNumber is not null

Comment or raise an issue for this mapping.

Cosd V9 Procedure Occurrence Procedure Opcs

Source column ProcedureOpcsCode. Resolve OPCS4 codes to OMOP concepts. If code cannot be mapped, map using the parent code.

  • ProcedureOpcsCode PROCEDURE (OPCS) is a Patient Procedure other than the PRIMARY PROCEDURE (OPCS). PROCEDURE (OPCS)
;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'								
), ProcedureOpcs as (				
	select								
		Id,								
		T.p.value('.', 'varchar(max)') as ProcedureOpcsCode															
	from CosdRecords								
	cross apply Node.nodes('ColorectalRecord/Treatment/Surgery/ProcedureOpcs/@code') as T(p)
), COSD as (
	select
		Id,
		Node.value('(ColorectalRecord/LinkagePatientId/NhsNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
		Node.value('(ColorectalRecord/Treatment/Surgery/ProcedureDate)[1]', 'varchar(max)') as ProcedureDate
	from CosdRecords
)
select
	distinct
		c.NhsNumber,
		c.ProcedureDate,
		p.ProcedureOpcsCode
from COSD c
	inner join ProcedureOpcs p
		on c.Id = p.Id;

Comment or raise an issue for this mapping.

Cosd V9 Procedure Occurrence Primary Procedure Opcs

Source column PrimaryProcedureOpcs. Resolve OPCS4 codes to OMOP concepts. If code cannot be mapped, map using the parent code.

  • PrimaryProcedureOpcs PRIMARY PROCEDURE (OPCS) is the OPCS Classification of Interventions and Procedures code which is used to identify the primary Patient Procedure carried out. PRIMARY PROCEDURE (OPCS)
;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'								
), COSD as (
	select
		Id,
		Node.value('(ColorectalRecord/LinkagePatientId/NhsNumber/@extension)[1]', 'varchar(max)') as NhsNumber,
		Node.value('(ColorectalRecord/Treatment/Surgery/ProcedureDate)[1]', 'varchar(max)') as ProcedureDate,
		Node.value('(ColorectalRecord/Treatment/Surgery/PrimaryProcedureOpcs/@code)[1]', 'varchar(max)') as PrimaryProcedureOpcs
	from CosdRecords
)
select
	distinct
		NhsNumber,
		ProcedureDate,
		PrimaryProcedureOpcs
from COSD c
where ProcedureDate is not null and PrimaryProcedureOpcs is not null;

Comment or raise an issue for this mapping.

Cosd V8 Procedure Occurrence Procedure Opcs

Source column ProcedureOpcsCode. Resolve OPCS4 codes to OMOP concepts. If code cannot be mapped, map using the parent code.

  • ProcedureOpcsCode PROCEDURE (OPCS) is a Patient Procedure other than the PRIMARY PROCEDURE (OPCS). PROCEDURE (OPCS)
;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/ColorectalCoreTreatment/ColorectalCoreSurgeryAndOtherProcedures/ProcedureDate)[1]', 'varchar(max)') as ProcedureDate,
		Node.value('(ColorectalCore/ColorectalCoreTreatment/ColorectalCoreSurgeryAndOtherProcedures/PrimaryProcedureOPCS/@code)[1]', 'varchar(max)') as PrimaryProcedureOpcs
	from CosdRecords        
), ProcedureOpcs as (				
	select								
		Id,								
		T.p.value('.', 'varchar(max)') as ProcedureOpcsCode															
	from CosdRecords								
	cross apply Node.nodes('ColorectalCore/ColorectalCoreTreatment/ColorectalCoreSurgeryAndOtherProcedures/ProcedureOPCS/@code') as T(p)
)
select
	distinct
		c.NhsNumber,
		c.ProcedureDate,
		p.ProcedureOpcsCode
from CO c
	inner join ProcedureOpcs p
		on c.Id = p.Id;

Comment or raise an issue for this mapping.

Cosd V8 Procedure Occurrence Primary Procedure Opcs

Source column PrimaryProcedureOpcs. Resolve OPCS4 codes to OMOP concepts. If code cannot be mapped, map using the parent code.

  • PrimaryProcedureOpcs PRIMARY PROCEDURE (OPCS) is the OPCS Classification of Interventions and Procedures code which is used to identify the primary Patient Procedure carried out. PRIMARY PROCEDURE (OPCS)
;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/ColorectalCoreTreatment/ColorectalCoreSurgeryAndOtherProcedures/ProcedureDate)[1]', 'varchar(max)') as ProcedureDate,
		Node.value('(ColorectalCore/ColorectalCoreTreatment/ColorectalCoreSurgeryAndOtherProcedures/PrimaryProcedureOPCS/@code)[1]', 'varchar(max)') as PrimaryProcedureOpcs
	from CosdRecords        
)
select
	distinct
		NhsNumber,
		ProcedureDate,
		PrimaryProcedureOpcs
from CO c
where ProcedureDate is not null and PrimaryProcedureOpcs is not null;

Comment or raise an issue for this mapping.

CDS Procedure Occurrence

Source column PrimaryProcedure. Resolve OPCS4 codes to OMOP concepts. If code cannot be mapped, map using the parent code.

select
	distinct
		l1.RecordConnectionIdentifier,
		l1.NHSNumber,
		p.PrimaryProcedureDate,
		p.PrimaryProcedure
from omop_staging.cds_line01 l1
	inner join omop_staging.cds_procedure p
		on l1.MessageId = p.MessageId
where l1.NHSNumber is not null;

Comment or raise an issue for this mapping.