Phenotype Library | phenotype: Tuberculosis Secondary care

Tuberculosis Secondary care

Chukwuma Iwundu, Clare MacRae, Eleftheria Vasileiou

PH819

Version ID

2253

Type

Disease or syndrome

Data Sources

Hospital Episode Statistics Admitted Patient Care , Civil Registration - Deaths , Annual District Death Extract , Patient Episode Dataset for Wales

Valid event data range

01/01/2001 to 31/01/2021

Sex

♀ Female ♂ Male

Agreement Date

2022-01-21

Coding system

ICD10 codes ICD11 codes

Collections

BREATHE Phenotype Library

Definition

The aim of this research work was to identify relevant diagnosis codes available in routine electronic health records from primary and secondary care settings in the UK. We looked for relevant codes in code repositories such as the University of Cambrigdge Primary Care Unit, Manchester Clinical Codes, HDR UK National Phenomics Resource Project, Oxford-RCGP RSC, OpenSAFELY and LSHTM Data Compass. We also searched for peer-reviewed studies published via PubMed in the last 12 months for any relevant codes. Please note that these codes are not intended to be mandatory, but are to be used as a starting point for the identification of Tuberculosis in routine electronic health record. Therefore, each study may differ in the sensitivity and specificity of the coding required. - No validation available

Implementation

According to NHS, tuberculosis is a bacterial infection spread through inhaling tiny droplets from the coughs or sneezes of an infected person. It mainly affects the lungs, but it can affect any part of the body, including the tummy (abdomen), glands, bones and nervous system.

https://www.nhs.uk/conditions/tuberculosis-tb/

Not found code search

Publications

No publications idenified via Pubmed in the last 12 months

Clinical Code List

CSV

JSON

XML

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C2573/6546 Tuberculosis Secondary care - 2 - ICD11 codes

Rows: 9

Code	Description	BREATHE recommended
1B10.0	Respiratory tuberculosis, confirmed	Y
1B10.1	Respiratory tuberculosis, not confirmed	Y
1B10.Z	Respiratory tuberculosis, without mention of bacteriological or histological confirmation	Y
1B14	Latent tuberculosis	Y
1B1Z	Tuberculosis, unspecified	Y
CA60.3	Pneumoconiosis associated with tuberculosis	Y
QA02.0	Observation for suspected tuberculosis, ruled out	N
QA08.1	Special screening examination for respiratory tuberculosis	N
QC00.2	Need for immunization against tuberculosis	N

C2572/6544 Tuberculosis Secondary care - 1 - ICD10 codes

Rows: 29

Code	Description	BREATHE recommended
A15	Respiratory tuberculosis, bacteriologically and histologically confirmed		Y
A15-A19	Tuberculosis		Y
A15.0	Tuberculosis of lung, confirmed by sputum microscopy with or without culture		Y
A15.1	Tuberculosis of lung, confirmed by culture only		Y
A15.2	Tuberculosis of lung, confirmed histologically		Y
A15.3	Tuberculosis of lung, confirmed by unspecified means		Y
A15.4	Tuberculosis of intrathoracic lymph nodes, confirmed bacteriologically and histologically		Y
A15.5	Tuberculosis of larynx, trachea and bronchus, confirmed bacteriologically and histologically		Y
A15.6	Tuberculous pleurisy, confirmed bacteriologically and histologically		Y
A15.7	Primary respiratory tuberculosis, confirmed bacteriologically and histologically		Y
A15.8	Other respiratory tuberculosis, confirmed bacteriologically and histologically		Y
A15.9	Respiratory tuberculosis unspecified, confirmed bacteriologically and histologically		Y
A16	Respiratory tuberculosis, not confirmed bacteriologically or histologically		Y
A16.0	Tuberculosis of lung, bacteriologically and histologically negative		Y
A16.1	Tuberculosis of lung, bacteriological and histological examination not done		Y
A16.2	Tuberculosis of lung, without mention of bacteriological or histological confirmation		Y
A16.3	Tuberculosis of intrathoracic lymph nodes, without mention of bacteriological or histological confirmation		Y
A16.4	Tuberculosis of larynx, trachea and bronchus, without mention of bacteriological or histological confirmation		Y
A16.5	Tuberculous pleurisy, without mention of bacteriological or histological confirmation		Y
A16.7	Primary respiratory tuberculosis without mention of bacteriological or histological confirmation		Y
A16.8	Other respiratory tuberculosis, without mention of bacteriological or histological confirmation	Y
A16.9	Respiratory tuberculosis unspecified, without mention of bacteriological or histological confirmation	Y
B90.9	Sequelae of respiratory and unspecified tuberculosis	N
J65	Pneumoconiosis associated with tuberculosis	Y
Z03.0	Observation for suspected tuberculosis	N
Z11.1	Special screening examination for respiratory tuberculosis	N
Z20.1	Contact with and exposure to tuberculosis	N
Z22.7	Latent tuberculosis	Y
Z23.2	Need for immunization against tuberculosis [BCG]	N

C2571/6542 Tuberculosis Secondary care - BREATHE recommended - 2 - ICD11 codes

Rows: 6

Code	Description
1B10.0	Respiratory tuberculosis, confirmed
1B10.1	Respiratory tuberculosis, not confirmed
1B10.Z	Respiratory tuberculosis, without mention of bacteriological or histological confirmation
1B14	Latent tuberculosis
1B1Z	Tuberculosis, unspecified
CA60.3	Pneumoconiosis associated with tuberculosis

C2570/6540 Tuberculosis Secondary care - BREATHE recommended - 1 - ICD10 codes

Rows: 4

Code	Description
A16.8	Other respiratory tuberculosis, without mention of bacteriological or histological confirmation
A16.9	Respiratory tuberculosis unspecified, without mention of bacteriological or histological confirmation
J65	Pneumoconiosis associated with tuberculosis
Z22.7	Latent tuberculosis

API

To Export Phenotype Details:

Format	API
XML	site_root/api/v1/public/phenotypes/PH819/version/2253/detail/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH819/version/2253/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('PH819', '2253', api_client=client)`

To Export Phenotype Code List:

Format	API
XML	site_root/api/v1/public/phenotypes/PH819/version/2253/export/codes/?format=xml
JSON	site_root/api/v1/public/phenotypes/PH819/version/2253/export/codes/?format=json
CSV	site_root/phenotypes/PH819/version/2253/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('PH819', '2253', api_client=client)`

Version History

Version ID	Name	Owner	Publish date
2253	Tuberculosis Secondary care	zinnurar	2022-08-09	currently shown
1717	Tuberculosis Secondary care	zinnurar	2022-01-21