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Number of citations per year for the bioinformatics software tool OCG
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This map represents all the scientific publications referring to OCG per scientific context
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OCG specifications

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Unique identifier OMICS_11247
Name OCG
Alternative name Overlapping Cluster Generator
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
Computer skills Advanced
Stability Stable
Maintained No

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Publication for Overlapping Cluster Generator

OCG citations

 (13)
library_books

Protein complex scaffolding predicted as a prevalent function of long non coding RNAs

2017
Nucleic Acids Res
PMCID: 5778612
PMID: 29165713
DOI: 10.1093/nar/gkx1169

[…] gathered together by lncRNA scaffolds to participate in metabolic or signaling pathways. For these reasons, we also used a dataset of 874 functional modules identified in the human interactome using OCG, an algorithm that decomposes a network into overlapping modules, based on modularity optimization (). These modules (hereafter referred to as ‘Network modules’) are groups of highly interacting p […]

library_books

Perturbed human sub networks by Fusobacterium nucleatum candidate virulence proteins

2017
Microbiome
PMCID: 5551000
PMID: 28793925
DOI: 10.1186/s40168-017-0307-1

[…] connected through their interactions and involved in the same biological process [] (see the “” section). We thus next investigated the 855 functional modules that we previously detected [] using the OCG algorithm that decomposes a network into overlapping modules, based on modularity optimization [] (Additional file : Table S8). A significant number of interactors participate in 2 or more of thes […]

library_books

Detecting similar binding pockets to enable systems polypharmacology

2017
PLoS Comput Biol
PMCID: 5490940
PMID: 28662117
DOI: 10.1371/journal.pcbi.1005522

[…] und sets were calculated to derive a Z-influence score so that the background had a mean of 0 and a standard deviation of 1.To analyze topological clusters, the human interactome was submitted to the overlapping cluster generator (OCG) []. Slim BP and MF annotations were obtained from GO (January 2015). […]

library_books

Protein complex prediction for large protein protein interaction networks with the CoreandPeel method

2016
BMC Bioinformatics
PMCID: 5123419
PMID: 28185552
DOI: 10.1186/s12859-016-1191-6

[…] l order is: MCODE [], RNSC [], Cfinder [], MCL [], COACH [], CMC [], HACO [], CORE [], CFA [], SPICi [], MCL-CAw [], ClusterONE [], Prorank [], the Weak ties method [], Overlapping Cluster Generator (OCG) [], PLW [], PPSampler2 [], and Prorank+ []. Further references to existing methods can be found in recent surveys by [, –].The graph representing a PPIN can also be augmented so to include additi […]

library_books

Overlapping Community Detection based on Network Decomposition

2016
Sci Rep
PMCID: 4828636
PMID: 27066904
DOI: 10.1038/srep24115

[…] ee yeast PPI networks derived from real-world biological data.Further, we compared the performance of NDOCD with two categories of representative approaches: node based clustering algorithms: CPM and OCG, and link based clustering algorithms: LC and ELC. For each algorithm, the final results were obtained after having optimized the algorithm parameters to yield the best possible results as measure […]

library_books

Relationships between predicted moonlighting proteins, human diseases, and comorbidities from a network perspective

2015
Front Physiol
PMCID: 4477069
PMID: 26157390
DOI: 10.3389/fphys.2015.00171

[…] onstructed by gathering interaction data from several databases through the PSICQUIC query interface (Aranda et al., ) (February 2013). Overlapping clusters have been extracted from the network using OCG (Becker et al., ), and annotated with Gene Ontology terms (Biological Process) using a majority rule. The EMF candidates are selected as proteins belonging to clusters annotated to dissimilar GO t […]


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OCG institution(s)
INSERM, U928, TAGC; Université d'Aix-Marseille, France; CNRS, UMR 6206, IML, Marseille, France; CNRS, France
OCG funding source(s)
CNRS (PEPS grant from the STII department of the CNRS); ANR as a Piribio grant (09-PIRI-0028-1, Moonlight project) and as partner of the ERASysBio+ initiative supported under the EU ERA-NET Plus scheme in FP7 (09-SYSB-0008-01 ModHeart project); the AXA Research Fund

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