ShinyGO: a graphical gene-set enrichment tool for animals and plants

Abstract Motivation Gene lists are routinely produced from various omic studies. Enrichment analysis can link these gene lists with underlying molecular pathways and functional categories such as gene ontology (GO) and other databases. Results To complement existing tools, we developed ShinyGO based...

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Bibliographic Details
Published in:Bioinformatics Vol. 36; no. 8; pp. 2628 - 2629
Main Authors: Ge, Steven Xijin, Jung, Dongmin, Yao, Runan
Format: Journal Article
Language:English
Published: England Oxford University Press 15.04.2020
Subjects:
Animals
Applications Notes
Computational Biology
Databases, Factual
Databases, Genetic
Gene Ontology
Internet
Probability
Software
ISSN:1367-4803, 1367-4811, 1460-2059, 1367-4811
Online Access:Get full text
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Summary:Abstract Motivation Gene lists are routinely produced from various omic studies. Enrichment analysis can link these gene lists with underlying molecular pathways and functional categories such as gene ontology (GO) and other databases. Results To complement existing tools, we developed ShinyGO based on a large annotation database derived from Ensembl and STRING-db for 59 plant, 256 animal, 115 archeal and 1678 bacterial species. ShinyGO’s novel features include graphical visualization of enrichment results and gene characteristics, and application program interface access to KEGG and STRING for the retrieval of pathway diagrams and protein–protein interaction networks. ShinyGO is an intuitive, graphical web application that can help researchers gain actionable insights from gene-sets. Availability and implementation http://ge-lab.org/go/. Supplementary information Supplementary data are available at Bioinformatics online.
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ISSN:1367-4803
1367-4811
1460-2059
1367-4811
DOI:10.1093/bioinformatics/btz931