Empyema or pyothorax or purulent pleuritis Primary care
Chukwuma Iwundu, Clare MacRae, Eleftheria Vasileiou
PH802 / 2226 Clinical-Coded Phenotype
Overview
Phenotype TypeDisease or syndromeSexBothValid Event Date Range01/01/2001 to 31/01/2021Coding SystemRead codes v2SNOMED CT codesCollectionsBREATHEPhenotype LibraryTagsNo dataDefinition
- Not found code search
- Hamilton et al, 2020Clinical coding of pleural empyema was validated using coding data from three hospitals in England, UK. The coded diagnoses of pleural empyema is defined as J86-, also known as pyothorax. Empyema was considered as a pleural effusion that had a documented pH of less than 7.2, microscopic evidence of infection, or frank pus. If microscopic evidence was not available, then clear clinical management as empyema (supporting radiology, clinical progress, and biochemistry) was used.The clinical diagnosis of empyema was made on retrospective review of the notes, discharge summary, radiology, and microbiology available.Empyema was considered as a pleural effusion that had a documented pH of less than 7.2, microscopic evidence of infection, or frank pus. If microscopic evidence was not available, then clear clinical management as empyema (supporting radiology, clinical progress, and biochemistry) was used.Empyema coding was generally good (>85% accuracy), although some cases were miscoded. Using codes for elective admissions helped to differentiate post-operative from community acquired empyema. It is likely empyema is under rather than over-recorded in HES data.Using codes for elective admissions helped to differentiate post-operative from community acquired empyema. It is likely empyema is under rather than over-recorded in HES data.
Implementation
Implementation
These codes are not intended to be mandatory, but are to be used as a starting point for the identification of empyema in routine Electronic Health Record (EHR). Each study may differ in the sensitivity and specificity of the coding required.
According to the National Health Service (NHS), Empyema is defined as pocketcs of pus that have collected insided a body cavity. They can form if a bacterial infection is left untreated, or if it fails to fully respond to treatment. The term is most commonly used to refer to pus-filled pockets that develop in the pleural space.
https://www.nhs.uk/conditions/empyema/
Not found code search
Clinical Code List
PUBLISHED - 57 Codes
PUBLISHED - 43 Codes
PUBLISHED - 44 Codes
PUBLISHED - 31 Codes
Publication
Publications in 2020-2021 identified in PubMed
Arnold DT, Hamilton FW, Morris TT, Suri T, Morley A, Frost V, Vipond IB, Medford AR, Payne RA, Muir P, Maskell NA. Epidemiology of pleural empyema in English hospitals and the impact of influenza. Eur Respir J. 2021 Jun 17;57(6):2003546. doi: 10.1183/13993003.03546-2020. PMID: 33334937.
(DOI:10.1183/13993003.03546-2020)Strachan R, Homaira N, Beggs S, Bhuiyan MU, Gilbert GL, Lambert SB, Macartney K, Marshall H, Martin AC, McCallum GB, McCullagh A, McDonald T, McIntyre P, Oftadeh S, Ranganathan S, Suresh S, Wainwright CE, Wilson A, Wong M, Snelling T, Jaffé A. Assessing the impact of the 13 valent pneumococcal vaccine on childhood empyema in Australia. Thorax. 2021 May;76(5):487-493. doi: 10.1136/thoraxjnl-2020-216032. Epub 2021 Jan 27. PMID: 33504566.
(DOI:10.1136/thoraxjnl-2020-216032)Code repositories
ID- 1 - Repository- Manchester ClinicalCodes - Description- The association between smoking and hospitalisations for cardiovascular events and respiratory infection in patients with rheumatoid arthritis: a retrospective cohort study using the Clinical Practice Research Datalink - Conditions- Respiratory tract infection - Publication- Unpublished - Clinical codes- ICD-10
ID- 2 - Repository- Manchester ClinicalCodes - Description- Smoking-related mortality in patients with early rheumatoid arthritis – a retrospective cohort study using the Clinical Practice Research Datalink - Conditions- Respiratory tract infection - Publication- https://doi.org/10.1002/acr.22882 - Clinical codes- ICD-10
(DOI:10.1002/acr.22882)ID- 3 - Repository- Manchester ClinicalCodes - Description- Antibiotic prescribing for common infections in UK general practice: variability and drivers - Conditions- LRTI - Publication- https://doi.org/10.1093/jac/dkz163 - Clinical codes- Read Version 2
(DOI:10.1093/jac/dkz163)ID- 4 - Repository- HDR UK National Phenomics Resource Project - Description- - Conditions- Bacterial diseases (excl TB) - Publication- - Clinical codes- ICD-10
ID- 5 - Repository- HDR UK National Phenomics Resource Project - Description- - Conditions- Lower respiratory tract infections - Publication- - Clinical codes- ICD-10
No dataCitation Requirements
API
To Export Phenotype Details:
Format API JSON site_root/api/v1/phenotypes/PH802/version/2226/detail/?format=json R Package library(ConceptLibraryClient)
# Connect to API
client = ConceptLibraryClient::Connection$new(public=TRUE)
# Get details of phenotype
phenotype_details = client$phenotypes$get_detail(
'PH802',
version_id=2226
)Py Package from pyconceptlibraryclient import Client
# Connect to API
client = Client(public=True)
# Get codelist of phenotype
phenotype_codelist = client.phenotypes.get_detail(
'PH802',
version_id=2226
)To Export Phenotype Code List:
Format API JSON site_root/api/v1/phenotypes/PH802/version/2226/export/codes/?format=json CSV site_root/phenotypes/PH802/version/2226/export/codes/ R Package library(ConceptLibraryClient)
# Connect to API
client = ConceptLibraryClient::Connection$new(public=TRUE)
# Get codelist of phenotype
phenotype_codelist = client$phenotypes$get_codelist(
'PH802',
version_id=2226
)Py Package from pyconceptlibraryclient import Client
# Connect to API
client = Client(public=True)
# Get codelist of phenotype
phenotype_codelist = client.phenotypes.get_codelist(
'PH802',
version_id=2226
)Version History