Phenotype Library | phenotype: Autoimmune liver disease

Autoimmune liver 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

PH111

Version ID

222

Type

Disease or Syndrome

Data Sources

CPRD GOLD , HES Admitted Patient Care data for CPRD GOLD

Valid event data range

01/01/1999 - 01/07/2016

Sex

♀ Female ♂ Male

Agreement Date

2019-05-20

Coding system

Read codes v2 ICD10 codes Med codes

Collections

CALIBER Phenotype Library

Definition

At the specified date, a patient is defined as having had 'Autoimmune liver disease' IF they meet the criteria for any of the following on or before the specified date. The earliest date on which the individual meets any of the following criteria on or before the specified date is defined as the first event date:

Primary care

'Autoimmune liver disease' diagnosis or history of diagnosis or procedure during a consultation

OR Secondary care

ALL diagnoses of 'Autoimmune liver disease' or history of diagnosis during a hospitalization

Implementation

PhenoFlow Implementation:

https://kclhi.org/phenoflow/phenotype/download/325

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

CSV

JSON

XML

Expand All / Collapse All

C998/3135 Autoimmune liver disease - Primary care - Read codes v2

Rows: 4

Code	Description	Disease	Medcode	Category
J614111	Autoimmune chronic active hepatitis	Autoimmune liver disease	7957.0	Diagnosis of Autoimmune liver disease
J616000	Primary biliary cirrhosis	Autoimmune liver disease	5638.0	Diagnosis of Autoimmune liver disease
J63B.00	Autoimmune hepatitis	Autoimmune liver disease	18652.0	Diagnosis of Autoimmune liver disease
J661700	Primary sclerosing cholangitis	Autoimmune liver disease	15425.0	Diagnosis of Autoimmune liver disease

C999/3137 Autoimmune liver disease - Primary care - Med codes

Rows: 4

Code	Description	Disease	ReadcodeDescr	Readcode
15425.0	Diagnosis of Autoimmune liver disease	Autoimmune liver disease	Primary sclerosing cholangitis	J661700
18652.0	Diagnosis of Autoimmune liver disease	Autoimmune liver disease	Autoimmune hepatitis	J63B.00
5638.0	Diagnosis of Autoimmune liver disease	Autoimmune liver disease	Primary biliary cirrhosis	J616000
7957.0	Diagnosis of Autoimmune liver disease	Autoimmune liver disease	Autoimmune chronic active hepatitis	J614111

C1000/3139 Autoimmune liver disease - Secondary care - Diagnoses - ICD10 codes

Rows: 2

Code	Description	Disease	Category
K74.3	Primary biliary cirrhosis	Autoimmune liver disease	Diagnosis of Autoimmune liver disease
K75.4	Autoimmune hepatitis	Autoimmune liver disease	Diagnosis of Autoimmune liver disease

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH111/version/222/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH111/version/222/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('PH111', '222', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH111/version/222/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH111/version/222/export/codes/?format=json
CSV	site_root/phenotypes/PH111/version/222/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('PH111', '222', api_client=client)`

Version History

Version ID	Name	Owner	Publish date
222	Autoimmune liver disease	ieuan.scanlon	2021-10-06	currently shown