Alcohol use
A. John, S. Rees
PH1107 / 3517 Clinical-Coded Phenotype
Overview
Phenotype TypeDisease or syndromeSexBothValid Event Date RangeNo dataCoding SystemSNOMED CT codesICD10 codesRead codes v2CollectionsAdolescent Data Platform (ADP)DATAMINDPhenotype LibraryTagsNo dataDefinition
Codes denoting alcohol use, including diagnoses of alcoholism, poisoning by alcohol in its various forms, and where alcohol has been found to be the cause of other health conditions.
ICD-10 defintion
This definition is based on validated, published and comparable code lists (Rees et. al., 2022; DelPozo-Banos et. al., 2018; Kim et. al., 2017; NHS, 2018; NHS, 2019; Syed et. al., 2018; Walsh et. al., 2018) and reviewed by a clinician in the study team (Prof Ann John).
Read codes definition
This definition also includes alcohol-related symptoms, observations, medications, behaviours, referrals and contacts with other services. It contains prescriptions relevant to treatment for alcohol use disorder (disulfiram and acamprosate), as almost all recipients were found to have a history of alcohol use (Rees et. al., 2022); and excludes those used primarily for pain management. Codes requiring an associated value of units relating to alcohol consumption volumes are excluded, as these do not confidently denote alcohol use disorder on their own. We included codes denoting ongoing intervention/treatment (e.g., alcohol withdrawal assessment).
This definition is based on validated, published and comparable code lists (Rees et. al., 2022; DelPozo-Banos et. al., 2018; Kim et. al., 2017; NHS, 2018; NHS, 2019; Syed et. al., 2018; Walsh et. al., 2018) and reviewed by a clinician in the study team (Prof Ann John).
SNOMED CT definition
The SNOMED codes for alcohol use were developed by mapping the existing ICD-10 and Read code definitions and complementary SNOMED searches. Treatments using disulfiram administered with benzyl benzoates were excluded as these are indicated for other diseases. Observations on alcohol intake, including attitudes toward drinking, were not included unless they specified quantifiable values. Exceptions were codes that determined alcohol involvement due to level of intoxication. Alcohol users disorder identification test are not included unless a positive result is specified.
Note: The SNOMED CT definition has not undergone validation yet.
References
DelPozo-Banos, M., John, A., Petkov, N., Berridge, D. M., Southern, K., LLoyd, K., ... & Travieso, C. M. (2018). Using neural networks with routine health records to identify suicide risk: feasibility study. JMIR mental health, 5(2), e10144.
Kim, Y. G., Baltabekova, A. Z., Zhiyenbay, E. E., Aksambayeva, A. S., Shagyrova, Z. S., Khannanov, R., ... & Shustov, A. V. (2017). Recombinant Vaccinia virus-coded interferon inhibitor B18R: Expression, refolding and a use in a mammalian expression system with a RNA-vector. PLoS One, 12(12), e0189308.
NHS National Services Scotland (2018). Alcohol-related hospital statistics Scotland 2017/18.
NHS National Services Scotland (2019). Drug-related hospital statistics Scotland 2017/18.
Rees, S., Watkins, A., Keauffling, J., & John, A. (2022). Incidence, Mortality and Survival in Young People with Co-Occurring Mental Disorders and Substance Use: A Retrospective Linked Routine Data Study in Wales. Clinical Epidemiology, 14, 21
Syed, S., Gilbert, R., & Wolpert, M. (2018). Parental alcohol misuse and the impact on children: a rapid evidence review of service presentations and interventions.
Walsh E, Jones R, Cox S. (2018). Data mining Wales: the annual profile for substance misuse 2017–18.
Implementation
Implementation
Clinical Code List
PUBLISHED - 195 Codes
PUBLISHED - 79 Codes
PUBLISHED - 819 Codes
Publication
Rees, S., Watkins, A., Keauffling, J., & John, A. (2022). Incidence, mortality and survival in young people with co-occurring mental disorders and substance use: a retrospective linked routine data study in Wales. Clinical Epidemiology, 21-38. https://www.tandfonline.com/doi/full/10.2147/CLEP.S325235?scroll=top&needAccess=true
(DOI:10.2147/CLEP.S325235)
Citation Requirements
Rees, S., Watkins, A., Keauffling, J., & John, A. (2022). Incidence, mortality and survival in young people with co-occurring mental disorders and substance use: a retrospective linked routine data study in Wales. Clinical Epidemiology, 21-38.
Citation Example
A. John, S. Rees. PH1107 / 3517 - Alcohol use. Phenotype Library [Online]. 22 July 2024. Available from: http://phenotypes.healthdatagateway.org/phenotypes/PH1107/version/3517/detail/. [Accessed 01 December 2024]
API
To Export Phenotype Details:
Format API JSON site_root/api/v1/phenotypes/PH1107/version/3517/detail/?format=json R Package library(ConceptLibraryClient)
# Connect to API
client = ConceptLibraryClient::Connection$new(public=TRUE)
# Get details of phenotype
phenotype_details = client$phenotypes$get_detail(
'PH1107',
version_id=3517
)Py Package from pyconceptlibraryclient import Client
# Connect to API
client = Client(public=True)
# Get codelist of phenotype
phenotype_codelist = client.phenotypes.get_detail(
'PH1107',
version_id=3517
)To Export Phenotype Code List:
Format API JSON site_root/api/v1/phenotypes/PH1107/version/3517/export/codes/?format=json CSV site_root/phenotypes/PH1107/version/3517/export/codes/ R Package library(ConceptLibraryClient)
# Connect to API
client = ConceptLibraryClient::Connection$new(public=TRUE)
# Get codelist of phenotype
phenotype_codelist = client$phenotypes$get_codelist(
'PH1107',
version_id=3517
)Py Package from pyconceptlibraryclient import Client
# Connect to API
client = Client(public=True)
# Get codelist of phenotype
phenotype_codelist = client.phenotypes.get_codelist(
'PH1107',
version_id=3517
)Version History