Tuberculosis Secondary care

Chukwuma Iwundu, Clare MacRae, Eleftheria Vasileiou

PH819 / 2253 Clinical-Coded Phenotype

  1. Overview

    Phenotype Type
    Disease or syndrome
    Sex
    Both
    Valid Event Date Range
    01/01/2001 to 31/01/2021
    Coding System
    ICD10 codesICD11 codes
    Data Sources
    Hospital Episode Statistics Admitted Patient Care, Civil Registration - Deaths, Annual District Death Extract, Patient Episode Dataset for Wales
    Collections
    BREATHEPhenotype Library
    Tags
    No data

  2. Definition

    The aim of this research work was to identify relevant diagnosis codes available in routine electronic health records from primary and secondary care settings in the UK. We looked for relevant codes in code repositories such as the University of Cambrigdge Primary Care Unit, Manchester Clinical Codes, HDR UK National Phenomics Resource Project, Oxford-RCGP RSC, OpenSAFELY and LSHTM Data Compass. We also searched for peer-reviewed studies published via PubMed in the last 12 months for any relevant codes. Please note that these codes are not intended to be mandatory, but are to be used as a starting point for the identification of Tuberculosis in routine electronic health record. Therefore, each study may differ in the sensitivity and specificity of the coding required. - No validation available

  3. Implementation

    Implementation

    According to NHS, tuberculosis is a bacterial infection spread through inhaling tiny droplets from the coughs or sneezes of an infected person. It mainly affects the lungs, but it can affect any part of the body, including the tummy (abdomen), glands, bones and nervous system.

    https://www.nhs.uk/conditions/tuberculosis-tb/

    Not found code search

  4. Clinical Code List

  5. Publication

    • No publications idenified via Pubmed in the last 12 months

    Citation Example

    Chukwuma Iwundu, Clare MacRae, Eleftheria Vasileiou. PH819 / 2253 - Tuberculosis Secondary care. Phenotype Library [Online]. 04 August 2022. Available from: http://phenotypes.healthdatagateway.org/phenotypes/PH819/version/2253/detail/. [Accessed 07 October 2024]

  6. API

    To Export Phenotype Details:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH819/version/2253/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(
     'PH819',
     version_id=2253
    )

    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(
     'PH819',
     version_id=2253
    )

    To Export Phenotype Code List:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH819/version/2253/export/codes/?format=json
    CSV site_root/phenotypes/PH819/version/2253/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(
     'PH819',
     version_id=2253
    )

    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(
     'PH819',
     version_id=2253
    )

  7. Version History

    Version IDNameOwnerPublish date
    2253 Tuberculosis Secondary care zinnurar2022-08-09currently shown
    1717 Tuberculosis Secondary care zinnurar2022-01-21