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Liis Kolberg, Uku Raudvere, Jaak Vilo, Hedi Peterson (University of Tartu, Tartu, Estonia)
Functional enrichment analysis is a standard way to interpret gene lists obtained from studying biological data. Enrichment analysis maps previously annotated knowledge from data sources like GO, HPO or KEGG to the gene lists and outputs significantly enriched terms. With the growth of underlying databases, the enrichment analyses tend to output longer lists of related functional terms. This creates a challenge to make the results compact and easily comparable. g:Profiler (https://biit.cs.ut.ee/gprofiler) is a widely used toolset providing up-to-date functional enrichment analysis together with gene list conversion between different namespaces and organisms for hundreds of species. With the extensive update in 2019, g:Profiler introduces a new approach to visualise and compare enrichment results using an interactive Manhattan plot to display significant terms. We have implemented an accompanying R package gprofiler2 that, among other functionalities, provides its own interactive Manhattan plot. This allows R users to interactively browse interlinked enrichment Manhattan plots and combine the discoveries to high-quality images ready for publication.