White Blood Cells

Shah A

PH353 / 706 Clinical-Coded Phenotype

  1. Overview

    Phenotype Type
    Biomarker
    Sex
    Both
    Valid Event Date Range
    01/01/1999 - 01/07/2016
    Coding System
    Read codes v2
    Data Sources
    Collections
    Phenotype Library
    Tags
    No data
  2. Definition

    Total white cell counts can be affected by many factors such as infections, autoimmune diseases, medication and haematological conditions. Similar to our recent study on eosinophil counts,1 we sought to differentiate between a patient’s long-term ‘stable’ total white cell count and results obtained when the patient had an ‘acute’ condition which may alter leukocyte counts. We used other information in the electronic health record (prescriptions, diagnoses, symptoms, hospitalisations) to assess whether the patient was clinically ‘acute’ or ‘stable’ at the time of the blood test, adapting a set of criteria proposed by the eMERGE consortium (electronic Medical Records and Genomics)2 for studying genetic determinants of the stable leukocyte counts: in hospital on the date of blood test, vaccination in the previous 7 days, anaemia diagnosis within the previous 30 days, symptoms or diagnosis of infection within the previous 30 days, prior diagnosis of myelodysplastic syndrome, prior diagnosis of haemoglobinopathy, cancer chemotherapy or G-CSF within 6 months before index date, the use of drugs affecting the immune system such as methotrexate or steroids within the previous 3 months, prior diagnosis of HIV infection, prior splenectomy or prior dialysis.

    In the Clinical Practice Research Datalink (CPRD, primary care data) we extracted white blood cell measurements using the structured data component of the test CPRD table (entity type 207) combined with a list of Read terms (see below). The value was extracted from the data2 field where the units data3 field were set as 37 [109/L], 153 [109], 17 [/L]. We filtered any values less than 50 10^9/L.

  3. Implementation

  4. Clinical Code List

  5. Publication

    No publications

    Citation Example

    Shah A. PH353 / 706 - White Blood Cells. Phenotype Library [Online]. 06 October 2021. Available from: http://phenotypes.healthdatagateway.org/phenotypes/PH353/version/706/detail/. [Accessed 15 June 2024]

  6. API

    To Export Phenotype Details:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH353/version/706/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(
     'PH353',
     version_id=706
    )

    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(
     'PH353',
     version_id=706
    )

    To Export Phenotype Code List:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH353/version/706/export/codes/?format=json
    CSV site_root/phenotypes/PH353/version/706/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(
     'PH353',
     version_id=706
    )

    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(
     'PH353',
     version_id=706
    )

  7. Version History

    Version IDNameOwnerPublish date
    706 White Blood Cells ieuan.scanlon2021-10-06currently shown