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Barrett's oesophagus

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
PH118
Version ID
236
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
Tags /Collections
CALIBER Phenotype Library

Definition

At the specified date, a patient is defined as having had 'Barrett's oesophagus' 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. 'Barrett's oesophagus' diagnosis or history of diagnosis during a consultation

OR Secondary care

  1. ALL diagnoses of 'Barrett's oesophagus' or history of diagnosis during a hospitalization

Implementation


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

Rows: 3
Code Description Disease Medcode Category
J101611 Barrett's oesophagus Barrett's oesophagus 4614.0 Diagnosis of Barrett's oesophagus
J102500 Barrett's ulcer of oesophagus Barrett's oesophagus 5596.0 Diagnosis of Barrett's oesophagus
J10y600 Barrett's oesophagus Barrett's oesophagus 99526.0 Diagnosis of Barrett's oesophagus
Rows: 3
Code Description Disease ReadcodeDescr Readcode
4614.0 Diagnosis of Barrett's oesophagus Barrett's oesophagus Barrett's oesophagus J101611
5596.0 Diagnosis of Barrett's oesophagus Barrett's oesophagus Barrett's ulcer of oesophagus J102500
99526.0 Diagnosis of Barrett's oesophagus Barrett's oesophagus Barrett's oesophagus J10y600
Rows: 1
Code Description Disease Category
K22.7 Barrett's oesophagus Barrett's oesophagus Diagnosis of Barrett's oesophagus

API

To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH118/version/236/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH118/version/236/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('PH118', '236', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH118/version/236/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH118/version/236/export/codes/?format=json
CSV site_root/phenotypes/PH118/version/236/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('PH118', '236', api_client=client)

Version History

Version
ID
Name Owner Publish date
236 Barrett's oesophagus 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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