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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

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



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.


The TissueEnrich web application is freely available at The R package is available through Bioconductor at 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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