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MeSH Enrichment and Semantic analyses

Bioconductor version: Release (3.19)

MeSH (Medical Subject Headings) is the NLM controlled vocabulary used to manually index articles for MEDLINE/PubMed. MeSH terms were associated by Entrez Gene ID by three methods, gendoo, gene2pubmed and RBBH. This association is fundamental for enrichment and semantic analyses. meshes supports enrichment analysis (over-representation and gene set enrichment analysis) of gene list or whole expression profile. The semantic comparisons of MeSH terms provide quantitative ways to compute similarities between genes and gene groups. meshes implemented five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively and supports more than 70 species.

Author: Guangchuang Yu [aut, cre], Erqiang Hu [ctb]

Maintainer: Guangchuang Yu <guangchuangyu at>

Citation (from within R, enter citation("meshes")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

meshes HTML R Script
Reference Manual PDF


biocViews Annotation, Clustering, MultipleComparison, Software
Version 1.30.0
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License Artistic-2.0
Depends R (>= 4.1.0)
Imports AnnotationDbi, DOSE, enrichplot, GOSemSim, methods, utils, AnnotationHub, MeSHDbi, yulab.utils
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Source Package meshes_1.30.0.tar.gz
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