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Cystic Fibrosis

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
PH40
Version ID
80
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 'Cystic Fibrosis' 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. 'Cystic Fibrosis' diagnosis or history of diagnosis during a consultation

OR Secondary care (ICD10)

  1. ALL diagnoses of 'Cystic Fibrosis' 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: 18
Code Description Disease Medcode Category
66k..00 Cystic fibrosis monitoring Cystic Fibrosis 100430.0 History of Cystic Fibrosis
66k0.00 Cystic fibrosis annual review Cystic Fibrosis 100520.0 History of Cystic Fibrosis
C10N100 Cystic fibrosis related diabetes mellitus Cystic Fibrosis 93380.0 History of Cystic Fibrosis
C370.00 Cystic fibrosis Cystic Fibrosis 6220.0 Diagnosis of Cystic Fibrosis
C370.11 Fibrocystic disease Cystic Fibrosis 13264.0 Diagnosis of Cystic Fibrosis
C370.12 Mucoviscidosis Cystic Fibrosis 24137.0 Diagnosis of Cystic Fibrosis
C370000 Cystic fibrosis with no meconium ileus Cystic Fibrosis 65344.0 Diagnosis of Cystic Fibrosis
C370100 Cystic fibrosis with meconium ileus Cystic Fibrosis 69017.0 Diagnosis of Cystic Fibrosis
C370111 Meconium ileus in cystic fibrosis Cystic Fibrosis 36622.0 Diagnosis of Cystic Fibrosis
C370200 Cystic fibrosis with pulmonary manifestations Cystic Fibrosis 18914.0 Diagnosis of Cystic Fibrosis
C370300 Cystic fibrosis with intestinal manifestations Cystic Fibrosis 18905.0 Diagnosis of Cystic Fibrosis
C370400 Arthropathy in cystic fibrosis Cystic Fibrosis 100610.0 History of Cystic Fibrosis
C370500 Cystic fibrosis with distal intestinal obstruction syndrome Cystic Fibrosis 103224.0 Diagnosis of Cystic Fibrosis
C370700 Liver disease due to cystic fibrosis Cystic Fibrosis 110454.0 History of Cystic Fibrosis
C370800 Cystic fibrosis related cirrhosis Cystic Fibrosis 102922.0 History of Cystic Fibrosis
C370900 Exacerbation of cystic fibrosis Cystic Fibrosis 106432.0 History of Cystic Fibrosis
C370y00 Cystic fibrosis with other manifestations Cystic Fibrosis 73065.0 Diagnosis of Cystic Fibrosis
C370z00 Cystic fibrosis NOS Cystic Fibrosis 49770.0 Diagnosis of Cystic Fibrosis
Rows: 18
Code Description Disease ReadcodeDescr Readcode
100430.0 History of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis monitoring 66k..00
100520.0 History of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis annual review 66k0.00
100610.0 History of Cystic Fibrosis Cystic Fibrosis Arthropathy in cystic fibrosis C370400
102922.0 History of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis related cirrhosis C370800
103224.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis with distal intestinal obstruction syndrome C370500
106432.0 History of Cystic Fibrosis Cystic Fibrosis Exacerbation of cystic fibrosis C370900
110454.0 History of Cystic Fibrosis Cystic Fibrosis Liver disease due to cystic fibrosis C370700
13264.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Fibrocystic disease C370.11
18905.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis with intestinal manifestations C370300
18914.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis with pulmonary manifestations C370200
24137.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Mucoviscidosis C370.12
36622.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Meconium ileus in cystic fibrosis C370111
49770.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis NOS C370z00
6220.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis C370.00
65344.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis with no meconium ileus C370000
69017.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis with meconium ileus C370100
73065.0 Diagnosis of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis with other manifestations C370y00
93380.0 History of Cystic Fibrosis Cystic Fibrosis Cystic fibrosis related diabetes mellitus C10N100
Rows: 1
Code Description Disease Category
E84 Cystic fibrosis Cystic Fibrosis Diagnosis of Cystic fibrosis

API

To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH40/version/80/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH40/version/80/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('PH40', '80', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH40/version/80/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH40/version/80/export/codes/?format=json
CSV site_root/phenotypes/PH40/version/80/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('PH40', '80', api_client=client)

Version History

Version
ID
Name Owner Publish date
80 Cystic Fibrosis 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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