Comprehensive functional analysis of large lists of genes and proteins

J Proteomics. 2018 Jan 16;171:2-10. doi: 10.1016/j.jprot.2017.03.016. Epub 2017 Mar 22.


The interpretation of high dimensional datasets resulting from genomic and proteomic experiments in a timely and efficient manner is challenging. ClueGO software is a Cytoscape App that extracts representative functional biological information for large lists of genes or proteins. The functional enrichment analysis is based on the latest publicly available data from multiple annotation and ontology resources that can be automatically accessed through ClueGO. Predefined settings for the selection of the terms are provided to facilitate the analysis. Results are visualized as networks in which Gene Ontology (GO) terms and pathways are grouped based on their biological role. Many species are now supported by ClueGO and additional organisms are added on demand. ClueGO can be used together with the CluePedia App to enable the visualization of protein-protein interactions within or between pathways.

Keywords: Bioinformatics; Biological networks; Gene ontology; Omics data analysis.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Computational Biology / methods*
  • Databases, Genetic
  • Databases, Protein
  • Datasets as Topic
  • Gene Ontology
  • Gene Regulatory Networks
  • Genes / physiology*
  • Proteins / physiology*
  • Proteomics / methods
  • Software


  • Proteins