CytoCluster statistics

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Associated diseases

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CytoCluster specifications

Information


Unique identifier OMICS_20754
Name CytoCluster
Software type Toolkit/Suite
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Version 2.1.0
Stability Stable
Requirements
Cytoscape
Maintained Yes

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Documentation


Maintainers


  • person_outline Fang-Xiang Wu <>
  • person_outline Min Li <>
  • person_outline Yu Tang <>
  • person_outline Dongyan Li <>

Publication for CytoCluster

CytoCluster in publications

 (7)
PMCID: 5855758
PMID: 29439426
DOI: 10.3390/ijms19020536

[…] complexes []. various plugins based on cytoscape, such as cytonca [], clusterviz [], dynetviewer [], cytoctrlanalyser [], were developed to analyze biological networks from different perspectives. cytocluster [] in our special issue is a popular clustering tool which integrates six clustering algorithms and bingo function. since it was established in july 2013, cytocluster has been downloaded […]

PMCID: 5762342
PMID: 29340074
DOI: 10.18632/oncotarget.22873

[…] pcg. co-expressed pairs were defined with a cutoff of |pcc| ≥ 0.7 and p < 0.001. network interactions were graphed using cytoscape software (version 3.2.1) []. two sub-modules were identified by cytocluster [], with the hc-pin clustering algorithm and other parameters as default, which is a plugin in cytoscape., the kaplan-meier survival curves of over-all survival was obtained using […]

PMCID: 5484478
PMID: 28650998
DOI: 10.1371/journal.pone.0179677

[…] the relevance of a protein as functionally capable of holding together communicating proteins. to select functional modules, a functional module analysis of the network was performed by way of cytocluster plug-in in cytoscape, with a score > 2., hub proteins (genes) have higher node degrees and account for 20% of the total number of nodes. bottleneck proteins are defined as proteins […]

PMCID: 5485287
PMID: 28691013
DOI: 10.1155/2017/1016305

[…] on maximal clique (cmc) [], clustermaker [], and clustering with overlapping neighborhood expansion (clusterone) []. many of these algorithms have been implemented in various cytoscape applications (cytocluster, clusterviz [], and clustermaker []), as well as in java-based applications (c-deva []). of these, as of february 2017, mcode was the most downloaded cytoscape application within […]

PMCID: 5048299
PMID: 27698451
DOI: 10.1038/srep34588

[…] similar variation tendency which could be grouped together and create numerous “functional groups”. these functional groups could be separated from the whole network as “subnetworks” by executing “cytocluster” in the software of cytoscape. combing predicated functions for each bacterial phylotype, these functional groups were annotated with different functions (). for example, two functional […]


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CytoCluster institution(s)
School of Information Science and Engineering, Central South University, Changsha, China; School of software, Central South University, Changsha, China; Department of Mechanical Engineering and Division of Biomedical Engineering, University of Saskatchewan, Saskatoon, SK, Canada
CytoCluster funding source(s)
Supported in part by the National Natural Science Foundation of China under Grants (No. 61622213, No. 61370024 and No. 61420106009).

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