Package: TissueEnrich Type: Package Title: Tissue-specific gene enrichment analysis Version: 1.33.0 Authors@R: c(person("Ashish Jain", email="jain.ashishjain1@gmail.com", role=c("aut", "cre")), person("Geetu Tuteja", email="geetu@iastate.edu", role=c("aut"))) Description: The TissueEnrich package is used to calculate enrichment of tissue-specific genes in a set of input genes. For example, the user can input the most highly expressed genes from RNA-Seq data, or gene co-expression modules to determine which tissue-specific genes are enriched in those datasets. Tissue-specific genes were defined by processing RNA-Seq data from the Human Protein Atlas (HPA) (Uhlén et al. 2015), GTEx (Ardlie et al. 2015), and mouse ENCODE (Shen et al. 2012) using the algorithm from the HPA (Uhlén et al. 2015).The hypergeometric test is being used to determine if the tissue-specific genes are enriched among the input genes. Along with tissue-specific gene enrichment, the TissueEnrich package can also be used to define tissue-specific genes from expression datasets provided by the user, which can then be used to calculate tissue-specific gene enrichments. License: MIT + file LICENSE VignetteBuilder: knitr Depends: R (>= 3.5), ggplot2 (>= 2.2.1), SummarizedExperiment (>= 1.6.5), GSEABase (>= 1.38.2) Imports: dplyr (>= 0.7.3), tidyr (>= 0.8.0), stats Suggests: knitr, rmarkdown, testthat Encoding: UTF-8 RoxygenNote: 7.3.1 biocViews: GeneSetEnrichment, GeneExpression, Sequencing Config/pak/sysreqs: libicu-dev libpng-dev libxml2-dev libssl-dev zlib1g-dev Repository: https://bioc.r-universe.dev Date/Publication: 2026-04-28 12:47:36 UTC RemoteUrl: https://github.com/bioc/TissueEnrich RemoteRef: HEAD RemoteSha: 7a20771e07e76d27a76371c0dc802aa330d1a04c NeedsCompilation: no Packaged: 2026-07-04 00:09:34 UTC; root Author: Ashish Jain [aut, cre], Geetu Tuteja [aut] Maintainer: Ashish Jain