Chronic Kidney Disease

Kuan V,Denaxas S,Gonzalez-Izquierdo A,Direk K,Bhatti O,Husain S,Sutaria S,Hingorani M,Nitsch D,Parisinos C,Lumbers T,Mathur R,Sofat R,Casas JP,Wong I,Hemingway H,Hingorani A

PH42 / 2933 Clinical-Coded Phenotype

  1. Overview

    Phenotype Type
    Disease or syndrome
    Sex
    Both
    Valid Event Date Range
    1999/01/01 - 2016/07/01
    Coding System
    No data
    Data Sources
    Collections
    Phenotype Library
    Tags
    No data
    Ontology
    No data
  2. Definition

    Apply modified CALIBER 'Chronic Kidney Disease' algorithm in CPRD primary care data as follows: A patient is defined as having had CKD stage 3 or above at a specified date: IF egfr_ckdepi recorded on or before specified date, THEN IF egfr_ckdepi ⧀60 ml/min on the most recent date (index date) before the specified date AND IF egfr_ckdepi ⧀60 ml/min on any date greater than 90 days BEFORE the index date above THEN classify as having CKD3 or above ELSE the patient is not defined as having CKD stage 3 or above. Where egfr_ckdepi up to and including 31 Dec 2013 is defined as: egfr_ckdepi = 141 * min(crea_gprd * 0.010746 / K, 1)^alpha * max(crea_gprd * 0.010746 / K, 1)^-1.209 * 0.993^age * 1.018 [if female] * 1.159 = [if black] where: alpha = -0.329 for females, -0.411 for males K = 0.7 for females, 0.9 for males Where egfr_ckdepi from and including 1 Jan 2014 is defined as: egfr_ckdepi = 141 * min(crea_gprd *0.011312/ K, 1)^alpha * max(crea_gprd * 0.011312/ K, 1)^-1.209 * 0.993^age * 1.018 [if female] * 1.159 [if black] where: alpha = -0.329 for females, -0.411 for males K = 0.7 for females, 0.9 for males Where crea_gprd is defined as: IF enttype = 165 [Serum creatinine] AND data1 [Operator] = 3 ["="] AND data2 [Value] ⧁ 0 THEN crea_gprd = data2

  3. Implementation

    Implementation

    No data
  4. Clinical Code List

    No Clinical Code Lists
  5. Publication

    Related publications

    • Kuan V., Denaxas S., Gonzalez-Izquierdo A. et al. A chronological map of 308 physical and mental health conditions from 4 million individuals in the National Health Service. The Lancet Digital Health - DOI 10.1016/S2589-7500(19)30012-3

      (DOI: 10.1016/S2589-7500(19)30012-3)

    Citation Example

    Kuan V,Denaxas S,Gonzalez-Izquierdo A,Direk K,Bhatti O,Husain S,Sutaria S,Hingorani M,Nitsch D,Parisinos C,Lumbers T,Mathur R,Sofat R,Casas JP,Wong I,Hemingway H,Hingorani A. PH42 / 2933 - Chronic Kidney Disease. Phenotype Library [Online]. 11 October 2023. Available from: http://phenotypes.healthdatagateway.org/phenotypes/PH42/version/2933/detail/. [Accessed 09 May 2025]

  6. API

    To Export Phenotype Details:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH42/version/2933/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(
     'PH42',
     version_id=2933
    )

    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(
     'PH42',
     version_id=2933
    )

    To Export Phenotype Code List:

    FormatAPI
    JSON site_root/api/v1/phenotypes/PH42/version/2933/export/codes/?format=json
    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(
     'PH42',
     version_id=2933
    )

    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(
     'PH42',
     version_id=2933
    )

  7. Version History

    Version IDNameOwnerPublish date
    Chronic Kidney Disease ieuan.scanlon2023-10-11 15:31
    1527 Chronic Kidney Disease ieuan.scanlon2021-10-27 14:20