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Mycoses

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
PH214
Version ID
428
Valid event data range
01/01/1999 - 01/07/2016
Sex
Female, Male
Agreement Date
2019-05-20
Coding system
ICD10 codes
Tags /Collections
CALIBER Phenotype Library

Definition

At the specified date, a patient is defined as having had Mycoses 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:

Secondary care

  1. ALL diagnoses of Mycoses 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: 23
Code Description Disease Category
B20.4 HIV disease resulting in candidiasis Mycoses Diagnosis of mycoses
B20.5 HIV disease resulting in other mycoses Mycoses Diagnosis of mycoses
B20.6 HIV disease resulting in Pneumocystis jirovecii pneumonia Mycoses Diagnosis of mycoses
B35 Dermatophytosis Mycoses Diagnosis of mycoses
B36 Other superficial mycoses Mycoses Diagnosis of mycoses
B37 Candidiasis Mycoses Diagnosis of mycoses
B38 Coccidioidomycosis Mycoses Diagnosis of mycoses
B39 Histoplasmosis Mycoses Diagnosis of mycoses
B40 Blastomycosis Mycoses Diagnosis of mycoses
B41 Paracoccidioidomycosis Mycoses Diagnosis of mycoses
B42 Sporotrichosis Mycoses Diagnosis of mycoses
B43 Chromomycosis and phaeomycotic abscess Mycoses Diagnosis of mycoses
B44 Aspergillosis Mycoses Diagnosis of mycoses
B45 Cryptococcosis Mycoses Diagnosis of mycoses
B46 Zygomycosis Mycoses Diagnosis of mycoses
B47 Mycetoma Mycoses Diagnosis of mycoses
B48 Other mycoses, not elsewhere classified Mycoses Diagnosis of mycoses
B49 Unspecified mycosis Mycoses Diagnosis of mycoses
B59 Pneumocystosis Mycoses Diagnosis of mycoses
G02.1 Meningitis in mycoses Mycoses Diagnosis of mycoses
H62.2 Otitis externa in mycoses Mycoses Diagnosis of mycoses
J17.2 Pneumonia in mycoses Mycoses Diagnosis of mycoses
M01.6 Arthritis in mycoses Mycoses Diagnosis of mycoses

API

To Export Phenotype Details:

Format API
XML site_root/api/v1/public/phenotypes/PH214/version/428/detail/?format=xml
JSON site_root/api/v1/public/phenotypes/PH214/version/428/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('PH214', '428', api_client=client)

To Export Phenotype Code List:

Format API
XML site_root/api/v1/public/phenotypes/PH214/version/428/export/codes/?format=xml
JSON site_root/api/v1/public/phenotypes/PH214/version/428/export/codes/?format=json
CSV site_root/phenotypes/PH214/version/428/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('PH214', '428', api_client=client)

Version History

Version
ID
Name Owner Publish date
428 Mycoses 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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