GSOAP: a tool for visualization of gene set over-representation analysis

MOTIVATION: Gene sets over-representation analysis (GSOA) is a common technique of enrichment analysis that measures the overlap between a gene set and selected instances (e.g. pathways). Despite its popularity, there is currently no established standard for visualization of GSOA results. RESULTS: H...

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Detalles Bibliográficos
Autores principales: Tokar, Tomas, Pastrello, Chiara, Jurisica, Igor
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2020
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7203738/
https://www.ncbi.nlm.nih.gov/pubmed/31977031
http://dx.doi.org/10.1093/bioinformatics/btaa001
Descripción
Sumario:MOTIVATION: Gene sets over-representation analysis (GSOA) is a common technique of enrichment analysis that measures the overlap between a gene set and selected instances (e.g. pathways). Despite its popularity, there is currently no established standard for visualization of GSOA results. RESULTS: Here, we propose a visual exploration of the GSOA results by showing the relationships among the enriched instances, while highlighting important instance attributes, such as significance, closeness (centrality) and clustering. AVAILABILITY AND IMPLEMENTATION: GSOAP is implemented as an R package and is available at https://github.com/tomastokar/gsoap.

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