Phenotype Library | phenotype: Parasitic infections

Parasitic infections

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

PH233

Version ID

466

Type

Disease or Syndrome

Data Sources

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

ICD10 codes

Collections

CALIBER Phenotype Library

Definition

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

ALL diagnoses of 'Parasitic infections' or history of diagnosis during a hospitalization

Implementation

PhenoFlow Implementation:

https://kclhi.org/phenoflow/phenotype/download/676

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

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C1342/3823 Parasitic infections - Secondary care - Diagnoses - ICD10 codes

Rows: 41

Code	Description	Disease	Category
A06	Amoebiasis	Parasitic infections	Diagnosis of Parasitic infections
A07	Other protozoal intestinal diseases	Parasitic infections	Diagnosis of Parasitic infections
A59	Trichomoniasis	Parasitic infections	Diagnosis of Parasitic infections
B50	Plasmodium falciparum malaria	Parasitic infections	Diagnosis of Parasitic infections
B51	Plasmodium vivax malaria	Parasitic infections	Diagnosis of Parasitic infections
B52	Plasmodium malariae malaria	Parasitic infections	Diagnosis of Parasitic infections
B53	Other parasitologically confirmed malaria	Parasitic infections	Diagnosis of Parasitic infections
B54	Unspecified malaria	Parasitic infections	Diagnosis of Parasitic infections
B55	Leishmaniasis	Parasitic infections	Diagnosis of Parasitic infections
B56	African trypanosomiasis	Parasitic infections	Diagnosis of Parasitic infections
B57	Chagas' disease	Parasitic infections	Diagnosis of Parasitic infections
B58	Toxoplasmosis	Parasitic infections	Diagnosis of Parasitic infections
B60	Other protozoal diseases, not elsewhere classified	Parasitic infections	Diagnosis of Parasitic infections
B64	Unspecified protozoal disease	Parasitic infections	Diagnosis of Parasitic infections
B65	Schistosomiasis [bilharziasis]	Parasitic infections	Diagnosis of Parasitic infections
B66	Other fluke infections	Parasitic infections	Diagnosis of Parasitic infections
B67	Echinococcosis	Parasitic infections	Diagnosis of Parasitic infections
B68	Taeniasis	Parasitic infections	Diagnosis of Parasitic infections
B69	Cysticercosis	Parasitic infections	Diagnosis of Parasitic infections
B70	Diphyllobothriasis and sparganosis	Parasitic infections	Diagnosis of Parasitic infections
B71	Other cestode infections	Parasitic infections	Diagnosis of Parasitic infections
B72	Dracunculiasis	Parasitic infections	Diagnosis of Parasitic infections
B73	Onchocerciasis	Parasitic infections	Diagnosis of Parasitic infections
B74	Filariasis	Parasitic infections	Diagnosis of Parasitic infections
B75	Trichinellosis	Parasitic infections	Diagnosis of Parasitic infections
B76	Hookworm diseases	Parasitic infections	Diagnosis of Parasitic infections
B77	Ascariasis	Parasitic infections	Diagnosis of Parasitic infections
B78	Strongyloidiasis	Parasitic infections	Diagnosis of Parasitic infections
B79	Trichuriasis	Parasitic infections	Diagnosis of Parasitic infections
B80	Enterobiasis	Parasitic infections	Diagnosis of Parasitic infections
B81	Other intestinal helminthiases, not elsewhere classified	Parasitic infections	Diagnosis of Parasitic infections
B82	Unspecified intestinal parasitism	Parasitic infections	Diagnosis of Parasitic infections
B83	Other helminthiases	Parasitic infections	Diagnosis of Parasitic infections
B85	Pediculosis and phthiriasis	Parasitic infections	Diagnosis of Parasitic infections
B86	Scabies	Parasitic infections	Diagnosis of Parasitic infections
B87	Myiasis	Parasitic infections	Diagnosis of Parasitic infections
B88	Other infestations	Parasitic infections	Diagnosis of Parasitic infections
B89	Unspecified parasitic disease	Parasitic infections	Diagnosis of Parasitic infections
J17.3	Pneumonia in parasitic diseases	Parasitic infections	Diagnosis of Parasitic infections
K23.1	Megaoesophagus in Chagas' disease	Parasitic infections	Diagnosis of Parasitic infections
P37.1	Congenital toxoplasmosis	Parasitic infections	Diagnosis of Parasitic infections

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH233/version/466/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH233/version/466/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('PH233', '466', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH233/version/466/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH233/version/466/export/codes/?format=json
CSV	site_root/phenotypes/PH233/version/466/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('PH233', '466', api_client=client)`

Version History

Version ID	Name	Owner	Publish date
466	Parasitic infections	ieuan.scanlon	2021-10-06	currently shown