Cancer

Siobhan Reilly, Ivan Olier, Claire Planner, Tim Doran, David Reeves, Darren M Ashcroft, Linda Gask, Evangelos Kontopantelis

PH624 / 1248 Clinical-Coded Phenotype

  1. Overview

    Phenotype Type
    Disease or syndrome
    Sex
    Male
    Valid Event Date Range
    01/04/2000 - 31/03/2012
    Coding System
    Read codes v2
    Data Sources
    Collections
    ClinicalCodes RepositoryPhenotype Library
    Tags
    No data
  2. Definition

    Objectives:

    Little is known about the prevalence of comorbidity rates in people with severe mental illness (SMI) in UK primary care. We calculated the prevalence of SMI by UK country, English region and deprivation quintile, antipsychotic and antidepressant medication prescription rates for people with SMI, and prevalence rates of common comorbidities in people with SMI compared with people without SMI.

    Design:

    Retrospective cohort study from 2000 to 2012.

    Setting:

    627 general practices contributing to the Clinical Practice Research Datalink, a UK primary care database.

    Participants:

    Each identified case (346 551) was matched for age, sex and general practice with 5 randomly selected control cases (1 732 755) with no diagnosis of SMI in each yearly time point.

    Outcome measures:

    Prevalence rates were calculated for 16 conditions.

  3. Implementation

    Implementation

    No data
  4. Clinical Code List

  5. Publication

    • Siobhan Reilly, Ivan Olier, Claire Planner, Tim Doran, David Reeves, Darren M Ashcroft, Linda Gask, Evangelos Kontopantelis, Inequalities in physical comorbidity a longitudinal comparative cohort study of people with severe mental illness in the UK. BMJ Open, 5(e009010), 2015.

    Citation Example

    Siobhan Reilly, Ivan Olier, Claire Planner, Tim Doran, David Reeves, Darren M Ashcroft, Linda Gask, Evangelos Kontopantelis. PH624 / 1248 - Cancer. Phenotype Library [Online]. 06 October 2021. Available from: http://phenotypes.healthdatagateway.org/phenotypes/PH624/version/1248/detail/. [Accessed 18 June 2024]

  6. API

    To Export Phenotype Details:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH624/version/1248/detail/?format=json
    R Package

    # Download here

    library(ConceptLibraryClient)


    # Connect to API

    client = ConceptLibraryClient::Connection$new(public=TRUE)


    # Get details of phenotype

    phenotype_details = client$phenotypes$get_detail(
     'PH624',
     version_id=1248
    )

    Py Package

    # Download here

    from pyconceptlibraryclient import Client


    # Connect to API

    client = Client(public=True)


    # Get codelist of phenotype

    phenotype_codelist = client.phenotypes.get_detail(
     'PH624',
     version_id=1248
    )

    To Export Phenotype Code List:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH624/version/1248/export/codes/?format=json
    CSV site_root/phenotypes/PH624/version/1248/export/codes/
    R Package

    # Download here

    library(ConceptLibraryClient)


    # Connect to API

    client = ConceptLibraryClient::Connection$new(public=TRUE)


    # Get codelist of phenotype

    phenotype_codelist = client$phenotypes$get_codelist(
     'PH624',
     version_id=1248
    )

    Py Package

    # Download here

    from pyconceptlibraryclient import Client


    # Connect to API

    client = Client(public=True)


    # Get codelist of phenotype

    phenotype_codelist = client.phenotypes.get_codelist(
     'PH624',
     version_id=1248
    )

  7. Version History

    Version IDNameOwnerPublish date
    1248 Cancer ieuan.scanlon2021-10-06currently shown