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

Version ID
Disease or Syndrome
Valid event data range
01/01/1999 - 01/07/2016
♀  Female ♂  Male
Agreement Date
Coding system
Read codes v2 ICD10 codes Med codes
CALIBER Phenotype Library
No tags


At the specified date, a patient is defined as having had 'Cholangitis' 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

  1. 'Cholangitis' diagnosis or history of diagnosis or procedure during a consultation

OR Secondary care

  1. ALL diagnoses of 'Cholangitis' or history of diagnosis during a hospitalization



  • 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

Rows: 15
Code Description Disease Medcode Category
J620100 Liver abscess due to cholangitis Cholangitis 25341.0 Diagnosis of Cholangitis
J646.00 Calculus of bile duct with cholangitis Cholangitis 24866.0 Diagnosis of Cholangitis
J661.00 Cholangitis Cholangitis 10431.0 Diagnosis of Cholangitis
J661000 Acute cholangitis Cholangitis 40416.0 Diagnosis of Cholangitis
J661100 Chronic cholangitis Cholangitis 51530.0 Diagnosis of Cholangitis
J661200 Recurrent cholangitis Cholangitis 15678.0 Diagnosis of Cholangitis
J661300 Suppurative cholangitis Cholangitis 41470.0 Diagnosis of Cholangitis
J661400 Ascending cholangitis Cholangitis 34753.0 Diagnosis of Cholangitis
J661500 Cholangitis lenta Cholangitis 66226.0 Diagnosis of Cholangitis
J661600 Obliterative cholangitis Cholangitis 97670.0 Diagnosis of Cholangitis
J661700 Primary sclerosing cholangitis Cholangitis 15425.0 Diagnosis of Cholangitis
J661800 Secondary sclerosing cholangitis Cholangitis 35667.0 Diagnosis of Cholangitis
J661900 Sclerosing cholangitis unspecified Cholangitis 44791.0 Diagnosis of Cholangitis
J661y00 Other cholangitis Cholangitis 33339.0 Diagnosis of Cholangitis
J661z00 Cholangitis NOS Cholangitis 64412.0 Diagnosis of Cholangitis
Rows: 15
Code Description Disease ReadcodeDescr Readcode
10431.0 Diagnosis of Cholangitis Cholangitis Cholangitis J661.00
15425.0 Diagnosis of Cholangitis Cholangitis Primary sclerosing cholangitis J661700
15678.0 Diagnosis of Cholangitis Cholangitis Recurrent cholangitis J661200
24866.0 Diagnosis of Cholangitis Cholangitis Calculus of bile duct with cholangitis J646.00
25341.0 Diagnosis of Cholangitis Cholangitis Liver abscess due to cholangitis J620100
33339.0 Diagnosis of Cholangitis Cholangitis Other cholangitis J661y00
34753.0 Diagnosis of Cholangitis Cholangitis Ascending cholangitis J661400
35667.0 Diagnosis of Cholangitis Cholangitis Secondary sclerosing cholangitis J661800
40416.0 Diagnosis of Cholangitis Cholangitis Acute cholangitis J661000
41470.0 Diagnosis of Cholangitis Cholangitis Suppurative cholangitis J661300
44791.0 Diagnosis of Cholangitis Cholangitis Sclerosing cholangitis unspecified J661900
51530.0 Diagnosis of Cholangitis Cholangitis Chronic cholangitis J661100
64412.0 Diagnosis of Cholangitis Cholangitis Cholangitis NOS J661z00
66226.0 Diagnosis of Cholangitis Cholangitis Cholangitis lenta J661500
97670.0 Diagnosis of Cholangitis Cholangitis Obliterative cholangitis J661600
Rows: 2
Code Description Disease Category
K80.3 Calculus of bile duct with cholangitis Cholangitis Diagnosis of Cholangitis
K83.0 Cholangitis Cholangitis Diagnosis of Cholangitis


To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH133/version/266/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH133/version/266/detail/?format=json
R Package

# Download here


# Connect to API

client = connect_to_API(public=TRUE)

# Get details of phenotype

details = get_phenotype_detail_by_version('PH133', '266', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH133/version/266/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH133/version/266/export/codes/?format=json
CSV site_root/phenotypes/PH133/version/266/export/codes/
R Package

# Download here


# Connect to API

client = connect_to_API(public=TRUE)

# Get codelists of phenotype

codelists = get_phenotype_code_list('PH133', '266', api_client=client)

Version History

Name Owner Publish date
266 Cholangitis ieuan.scanlon 2021-10-06 currently shown

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

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