Asthma
Eleanor L Axson, Jennifer K Quint
PH12 / 24 Clinical-Coded Phenotype
Overview
Phenotype TypeDisease or syndromeSexBothValid Event Date Range01/01/2001 - 31/12/2019Coding SystemICD10 codesRead codes v2SNOMED CT codesUKBioBank codesICD11 codesCollectionsBREATHEPhenotype LibraryTagsNo dataDefinition
These codes will capture asthma ever, not just current asthma. These codes are not intended to be mandatory, but are to be used as a starting point for the identification of asthma in routine EHR. Each study may differ in the sensitivity and specificity of the coding required.
For those interested in further discrimination of asthma phenotypes, we refer you to Nissen et al. 2019.
F. Nissen, Douglas, I. J., Mullerova, H., Pearce, N., Bloom, C. I., Smeeth, L., and Quint, J. K., ?Clinical profile of predefined asthma phenotypes in a large cohort of UK primary care patients (Clinical Practice Research Datalink)?, J Asthma Allergy, vol. 12, pp. 7-19, 2019.
Validation of Read Codes for the Identification of COPD in CPRD
Quint et al. validated a set of Read codes for the identification of COPD in CPRD in 2014. Using diagnostic codes alone, the positive predictive value (PPV) was 86.5% (77.5?92.3%). Requiring a diagnostic code, spirometry measures, and specific medication increased PPV to 89.4% (80.7?94.5%) but reduced case numbers by 10%.
Implementation
Phenoflow IDImplementation
Clinical Code List
PUBLISHED - 165 Codes
PUBLISHED - 150 Codes
PUBLISHED - 1 Codes
PUBLISHED - 2 Codes
PUBLISHED - 2 Codes
PUBLISHED - 3 Codes
Publication
Publications from 2019 using validated Read codes from Nissen et al. 2017
F. Nissen, Douglas, I. J., Mullerova, H., Pearce, N., Bloom, C. I., Smeeth, L., and Quint, J. K., ?Clinical profile of predefined asthma phenotypes in a large cohort of UK primary care patients (Clinical Practice Research Datalink)?, J Asthma Allergy, vol. 12, pp. 7-19, 2019."
C. I. Bloom, Walker, S., and Quint, J. K., ?Inadequate specialist care referrals for high-risk asthma patients in the UK: an adult population-based cohort 2006-2017?, J Asthma, pp. 1-7, 2019."
D. Dedman, Coton, S. J., Ghosh, R. E., Meeraus, W., Crim, C., Harvey, C., Amelio, J., and Landis, S. H., ?Treatment Patterns of New Users of Fluticasone Furoate/Vilanterol in Asthma and COPD in UK Primary Care: Retrospective Cohort Study?, Pulmonary Therapy, vol. 5, pp. 81-95, 2019."
Publications from 2019 using Read codes from QOF
P. Rockenschaub, Jhass, A., Freemantle, N., Aryee, A., Rafiq, M., Hayward, A., and Shallcross, L., ?Opportunities to reduce antibiotic prescribing for patients with COPD in primary care: a cohort study using electronic health records from the Clinical Practice Research Datalink (CPRD)?, J Antimicrob Chemother, 2019."
Wellcome Open Research
Citation Example
Eleanor L Axson, Jennifer K Quint. PH12 / 24 - Asthma. Phenotype Library [Online]. 06 October 2021. Available from: http://phenotypes.healthdatagateway.org/phenotypes/PH12/version/24/detail/. [Accessed 30 October 2024]
API
To Export Phenotype Details:
Format API JSON site_root/api/v1/phenotypes/PH12/version/24/detail/?format=json R Package library(ConceptLibraryClient)
# Connect to API
client = ConceptLibraryClient::Connection$new(public=TRUE)
# Get details of phenotype
phenotype_details = client$phenotypes$get_detail(
'PH12',
version_id=24
)Py Package from pyconceptlibraryclient import Client
# Connect to API
client = Client(public=True)
# Get codelist of phenotype
phenotype_codelist = client.phenotypes.get_detail(
'PH12',
version_id=24
)To Export Phenotype Code List:
Format API JSON site_root/api/v1/phenotypes/PH12/version/24/export/codes/?format=json CSV site_root/phenotypes/PH12/version/24/export/codes/ R Package library(ConceptLibraryClient)
# Connect to API
client = ConceptLibraryClient::Connection$new(public=TRUE)
# Get codelist of phenotype
phenotype_codelist = client$phenotypes$get_codelist(
'PH12',
version_id=24
)Py Package from pyconceptlibraryclient import Client
# Connect to API
client = Client(public=True)
# Get codelist of phenotype
phenotype_codelist = client.phenotypes.get_codelist(
'PH12',
version_id=24
)Version History