ClueGO specifications


Unique identifier OMICS_04142
Name ClueGO
Software type Package/Module
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Version 2.5.0
Stability Stable
Requirements Cytoscape
Maintained Yes



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  • person_outline Jérôme Galon <>

ClueGO article

ClueGO citations

PMCID: 5885410

[…] eo supplementation in lamb could be used not only for its direct beneficial effect on gastrointestinal trait [14, 15, 19, 21]., in addition, gsea analysis of differential expression profiles and the cluego functional analysis of liver modules identified in wgcna provided evidence of the effect of eo diet on inflammatory and immune pathway. in males, the wgcna module with the highest correlation […]

PMCID: 5844973

[…] genes revealed by ipa and those molecules which have been detected to be significantly differentially expressed by rt-pcr or immunohistochemistry (ihc) in our present and previous study (7) by cluego (v. 2.3.5) (8) and cluepedia (v. 1.3.5) (9) tool kits of cytoscape ( software (v. 3.5.1) (10) using gene ontology (go) biological process (bp), go immune system process […]

PMCID: 5627882

[…] from pcos patients, and 3 normal granulosa cell samples. differentially expressed genes (degs) were screened between pcos and normal samples. pathway enrichment analysis was conducted for degs using cluego and cluepedia plugin of cytoscape. a reactome functional interaction (fi) network of the degs was built using reactomefiviz, and then network modules were extracted, followed by pathway […]

PMCID: 5426002

[…] of genes obtained from deseq 2 was done by uploading all degs into humanmine [49]. network visualization and functional enrichment analysis was conducted through cytoscape software 3.3. and cluego 2.3.2 [50]. log2 of fold change of the expression value (after normalization) was imported into qiagen ingenuity pathways analysis (ipa) for an upstream transcriptional factor analysis as well […]

PMCID: 5290407

[…] manually removed from the lists of interacting proteins prior to pathway enrichment analysis. ugt1a interacting partners were classified according to kegg pathways (update november 12, 2016) using cluego and cluepedia apps (v2.3.2) in cytoscape 3.4 (bindea et al., 2009, 2013). enrichment was determined based on a two-sided hypergeometric statistical test and a bonferroni step down correction […]

ClueGO institution(s)
INSERM, AVENIR Team, Integrative Cancer Immunology, Paris, France
ClueGO funding source(s)
Supported by INSERM, Ville de Paris, INCa, the Austrian Ministry for Science and Research, Project GEN-AU, BINII, and the European 7FP Grant Agreement 202230 (GENINCA).

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