UKBCC

UKBCC curates and generates cohorts from UK Biobank (UKB) datasets by mapping and querying heterogeneous encoding schemes across main and associated datasets, including general practitioner clinical data.

Key Features:

• Python implementation: Implemented in Python to enable programmatic cohort construction and integration with analysis workflows.
• Search-term based cohort construction: Accepts user-defined search terms to identify participants meeting precise inclusion and exclusion criteria.
• Multi-dataset filtering: Filters across main UKB datasets and associated datasets such as general practitioner clinical data to combine heterogeneous sources.
• Module integration: Importable as a module for incorporation into broader analytical pipelines.
• Automated bulk data handling: Supports automatic downloading and handling of large bulk data files.
• Replicable cohort creation: Provides sub-modules and functions that enable reproducible cohort generation.

Scientific Applications:

• Cohort generation: Construct targeted cohorts from UK Biobank for research studies using user-defined search terms.
• Participant subset identification: Identify participant subsets that satisfy precise selection criteria across encoded, heterogeneous UKB data sources.

Methodology:

Implemented in Python with sub-modules and functions that accept user-defined search terms, perform filtering across main and associated UKB datasets (including general practitioner clinical data), and support automatic downloading of bulk data files.