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Bioinformatics. 2018 Oct 22. doi: 10.1093/bioinformatics/bty890. [Epub ahead of print]

TissueEnrich: Tissue-specific gene enrichment analysis.

Author information

1
Bioinformatics and Computational Biology, Iowa State University, Ames, IA, USA.
2
Genetics, Development and Cell Biology, Iowa State University, Ames, IA, USA.

Abstract

Summary:

RNA-Seq data analysis results in lists of genes that may have a similar function, based on differential gene expression analysis or co-expression network analysis. While tools have been developed to identify biological processes that are enriched in the genes sets, there remains a need for tools that identify enrichment of tissue-specific genes. Therefore, we developed TissueEnrich, a tool that calculates tissue-specific gene enrichment in an input gene set. We demonstrated that TissueEnrich can assign tissue identities to single cell clusters and differentiated embryonic stem cells.

Availability:

The TissueEnrich web application is freely available at http://tissueenrich.gdcb.iastate.edu/. The R package is available through Bioconductor at https://bioconductor.org/packages/TissueEnrich. Both the web application and R package are for non-profit academic use under the MIT license.

Supplementary information:

Supplementary data are available at Bioinformatics online.

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