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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

Type
Disease or Syndrome
ID
PH42
Version ID
1527
Data Sources
Valid event data range
01/01/1999 - 01/07/2016
Sex
Female,Male
Agreement Date
2019-05-20
Coding system
Tags /Collections
Phenotype Library

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 * 0.010746 / K, 1)^alpha * max(crea_gprd * 0.0.011312/ 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

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

Clinical Code List

no concepts

API

To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH42/version/1527/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH42/version/1527/detail/?format=json
R Package

# Download here

library(ConceptLibraryClient)


# Connect to API

client = connect_to_API(public=TRUE)


# Get details of phenotype

details = get_phenotype_detail_by_version('PH42', '1527', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH42/version/1527/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH42/version/1527/export/codes/?format=json
CSV site_root/phenotypes/PH42/version/1527/export/codes/
R Package

# Download here

library(ConceptLibraryClient)


# Connect to API

client = connect_to_API(public=TRUE)


# Get codelists of phenotype

codelists = get_phenotype_code_list('PH42', '1527', api_client=client)

Version History

Version
ID
Name Owner Publish date
1527 Chronic Kidney Disease ieuan.scanlon 2021-10-27 currently shown

Export - export all codes into a csv file/JSON/XML for the current phenotype version.

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