Rheumatoid Arthritis

Amanda Nicholson, Elizabeth Ford, Kevin A Davies, Helen E Smith, Greta Rait, A Rosemary Tate, Irene Petersen, Jackie Cassell

PH608 / 1216 Clinical-Coded Phenotype

  1. Overview

    Phenotype Type
    Disease or syndrome
    Sex
    Both
    Valid Event Date Range
    01/01/2005 - 31/12/2008
    Coding System
    Read codes v2
    Data Sources
    Collections
    ClinicalCodes RepositoryPhenotype Library
    Tags
    No data
  2. Definition

    Methods:

    We examined EHRs of 5,843 patients in the General Practice Research Database, aged $30y, with a first coded diagnosis of RA between 2005 and 2008. Lists of indicator markers for RA were developed initially by panels of clinicians drawing up code-lists and then modified based on scrutiny of available data. The prevalence of indicator markers, and their temporal relationship to RA codes, was examined in patients from 3y before to 14d after recorded RA diagnosis.

    Findings:

    Indicator markers were common throughout EHRs of RA patients, with 83.5% having 2 or more markers. 34% of patients received a disease-specific prescription before RA was coded; 42% had a referral to rheumatology, and 63% had a test for rheumatoid factor. 65% had at least one joint symptom or sign recorded and in 44% this was at least 6-months before recorded RA diagnosis.

  3. Implementation

    Implementation

    No data
  4. Clinical Code List

  5. Publication

    • Amanda Nicholson, Elizabeth Ford, Kevin A Davies, Helen E Smith, Greta Rait, A Rosemary Tate, Irene Petersen, Jackie Cassell, Optimising Use of Electronic Health Records to Describe the Presentation of Rheumatoid Arthritis in Primary Care A Strategy for Developing Code Lists. PLoS ONE, 8:2, 2013.

    Citation Example

    Amanda Nicholson, Elizabeth Ford, Kevin A Davies, Helen E Smith, Greta Rait, A Rosemary Tate, Irene Petersen, Jackie Cassell. PH608 / 1216 - Rheumatoid Arthritis. Phenotype Library [Online]. 06 October 2021. Available from: http://phenotypes.healthdatagateway.org/phenotypes/PH608/version/1216/detail/. [Accessed 15 June 2024]

  6. API

    To Export Phenotype Details:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH608/version/1216/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(
     'PH608',
     version_id=1216
    )

    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(
     'PH608',
     version_id=1216
    )

    To Export Phenotype Code List:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH608/version/1216/export/codes/?format=json
    CSV site_root/phenotypes/PH608/version/1216/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(
     'PH608',
     version_id=1216
    )

    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(
     'PH608',
     version_id=1216
    )

  7. Version History

    Version IDNameOwnerPublish date
    1216 Rheumatoid Arthritis ieuan.scanlon2021-10-06currently shown