FAIR data retrieval for sensitive clinical research data in Galaxy.

ABSTRACT:

Background

In clinical research, data have to be accessible and reproducible, but the generated data are becoming larger and analysis complex. Here we propose a platform for Findable, Accessible, Interoperable, and Reusable (FAIR) data access and creating reproducible findings. Standardized access to a major genomic repository, the European Genome-Phenome Archive (EGA), has been achieved with API services like PyEGA3. We aim to provide a FAIR data analysis service in Galaxy by retrieving genomic data from the EGA and provide a generalized "omics" platform for FAIR data analysis.

Results

To demonstrate this, we implemented an end-to-end Galaxy workflow to replicate the findings from an RD-Connect synthetic dataset Beyond the 1 Million Genomes (synB1MG) available from the EGA.

SUBMITTER: Ouwerkerk J 

PROVIDER: S-EPMC10821763 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature