SheepGenomesDB Approaches It’s 1000th Sheep Genome in Run2

The SheepGenomesDB project has assembled publically available sheep genomes into a single analytical workflow for the purpose of variant detection. Run 1 captured nearly 500 sheep genomes, and applied a harmonised pipeline for raw read filtering, mapping and variant detection. This generated nearly 100 million unfiltered variants which were pruned to define a high confidence set. Both variant collections (raw and high quality) are available via the European Variation Archive (EVA), with the high quality variants annotated against OARv3.1 using the Ensembl Variant Effect Predictor (VEP). The EVA interface provides visualization, gene centric queries and full download functionality to support a range of user community applications. Data is also available from EVA via API. Run2 is underway, expanding the breadth of diversity represented and number of genomes to almost 1000. We present summary statistics from the workflow, and highlight applications to imputation, analysis of domestication, disease mutation identification and linkages with the emerging FAANG project.