Phenotype Library | phenotype: Septicaemia

Septicaemia

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

PH301

Version ID

602

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

Tags /Collections

CALIBER Phenotype Library

Definition

At the specified date, a patient is defined as having had 'Septicaemia' 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 'Septicaemia' or history of diagnosis during a hospitalization

Implementation

PhenoFlow Implementation:

https://kclhi.org/phenoflow/phenotype/download/878

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

Expand All / Collapse All

C1549/4237 Septicaemia - Secondary care - Diagnoses - ICD10 codes

Rows: 14

Code	Description	Disease	Category
A02.1	Salmonella sepsis	Septicaemia	Diagnosis of Septicaemia
A20.7	Septicaemic plague	Septicaemia	Diagnosis of Septicaemia
A22.7	Anthrax sepsis	Septicaemia	Diagnosis of Septicaemia
A26.7	Erysipelothrix sepsis	Septicaemia	Diagnosis of Septicaemia
A32.7	Listerial sepsis	Septicaemia	Diagnosis of Septicaemia
A39.1	Waterhouse-Friderichsen syndrome	Septicaemia	Diagnosis of Septicaemia
A39.2	Acute meningococcaemia	Septicaemia	Diagnosis of Septicaemia
A39.3	Chronic meningococcaemia	Septicaemia	Diagnosis of Septicaemia
A39.4	Meningococcaemia, unspecified	Septicaemia	Diagnosis of Septicaemia
A40	Streptococcal sepsis	Septicaemia	Diagnosis of Septicaemia
A41	Other sepsis	Septicaemia	Diagnosis of Septicaemia
A42.7	Actinomycotic sepsis	Septicaemia	Diagnosis of Septicaemia
B37.7	Candidal sepsis	Septicaemia	Diagnosis of Septicaemia
P36	Bacterial sepsis of newborn	Septicaemia	Diagnosis of Septicaemia

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH301/version/602/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH301/version/602/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('PH301', '602', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH301/version/602/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH301/version/602/export/codes/?format=json
CSV	site_root/phenotypes/PH301/version/602/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('PH301', '602', api_client=client)`

Version History

Version ID	Name	Owner	Publish date
602	Septicaemia	ieuan.scanlon	2021-10-06	currently shown