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COFECO specifications


Unique identifier OMICS_08505
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Gwan-Su Yi <>

Publication for COFECO

COFECO in publications

PMCID: 4965726
PMID: 27490120
DOI: 10.1186/s12859-016-1079-5

[…] the pfam database []. ppi and ddi data were collected from integrated ppi database [] and integrated ddi database (iddi) [] respectively. moreover, we downloaded the protein complex datasets from cofeco []., from the uniprotkb, we first obtained totalhuman proteins in swissprot []. disease-associated genes were collected from three databases: omim, pharmgkb [], kegg disease []. […]

PMCID: 4460778
PMID: 26043779
DOI: 10.1186/1472-6947-15-S1-S7

[…] threshold for the first time, while maximizing the number of involved samples., to identify functional meaning of discovered coexpressed gene sets, we performed functional enrichment analysis by cofeco []. we selected the biological process of gene ontology terms with a corrected p-value of 0.005., we collected disease-associated genes from six databases: omim (online mendelian inheritance […]

PMCID: 3618247
PMID: 23566118
DOI: 10.1186/1472-6947-13-S1-S3

[…] (tf)-target functional modules and mirna-target functional modules from promoters and 3'-untranslated region (utr) motifs are collected from msigdb []. to collect protein complex functional modules, cofeco [], which contains data from reactome, corum [], gene ontology (go) [] cellular component category, pindb [], and mpact [] is selected. the go biological process category is also collected […]

PMCID: 3618306
PMID: 23496895
DOI: 10.1186/1471-2164-14-144

[…] biclusters, functional enrichment of extracted biclusters was conducted with the go functional category and the kegg biological pathway for each biclustering algorithm. a modified version of cofeco (composite function annotation enriched by protein complex data) was used for functional enrichment analysis []. all searched biclusters from each biclustering algorithm were enriched to four […]

PMCID: 2923113
PMID: 20653930
DOI: 10.1186/1752-0509-4-102

[…] types, see additional file ). we mapped every selected module over both mips and reactome domains to exploit more coverage (corum -[] and also cofeco -[] were used)., finally, we looked at pathway enrichment through p-values (see additional file ) and performed a qualitative evaluation aimed to characterize […]

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COFECO institution(s)
Department of Bio and Brain Engineering, KAIST, Gwahangno, Yuseong-gu, Daejeon, Korea

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