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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "TissueEnrich" in publications use:'
type: software
license: MIT
title: 'TissueEnrich: Tissue-specific gene enrichment analysis'
version: 1.32.0
doi: 10.1093/bioinformatics/bty890
identifiers:
- type: doi
  value: 10.32614/CRAN.package.TissueEnrich
abstract: 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.
authors:
- name: Ashish Jain
  email: jain.ashishjain1@gmail.com
- name: Geetu Tuteja
  email: geetu@iastate.edu
preferred-citation:
  type: article
  title: 'TissueEnrich: Tissue-specific gene enrichment analysis'
  authors:
  - family-names: Jain
    given-names: Ashish
  - family-names: Tuteja
    given-names: Geetu
  journal: Bioinformatics
  year: '2018'
  doi: 10.1093/bioinformatics/bty890
  start: bty890
repository: https://bioc-release.r-universe.dev
commit: 71bf1ec359d92ee8c7069cae74a71881e6c33c07
date-released: '2026-04-28'
contact:
- name: Ashish Jain
  email: jain.ashishjain1@gmail.com