:: DESCRIPTION
ICSearcher is a tool which is based on BMM(the algorithm Based on the new Modularity function for Merging modules) for identifying protein complexes.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
CPL is a graph clustering software, which is designed to detect protein complexes in protein-protein network (PPI). It detects the complexes by propagating labels, which is to simulate the interacting activities of proteins.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Journal of Computer Science and Technology November 2014, Volume 29, Issue 6, pp 1083–1093
CPL: Detecting Protein Complexes by Propagating Labels on Protein-Protein Interaction Network
Qi-Guo DaiMao-Zu GuoEmail authorXiao-Yan LiuZhi-Xia TengChun-Yu Wang
:: DESCRIPTION
PLSMC is a novel algorithm based on a penalized least square method to detect complex in PPI network. PLSMC is to minimize the distances between the interaction and co-complex of protein pairs.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
A least square method based model for identifying protein complexes in protein-protein interaction network.
Dai Q, Guo M, Guo Y, Liu X, Liu Y, Teng Z.
Biomed Res Int. 2014;2014:720960. doi: 10.1155/2014/720960.
:: DESCRIPTION
PCIA is an algorithm proposed to identify protein complexes in protein-protein interaction networks. It can make use of both topological and attribute information to identify protein complexes more efficiently.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Allen L. Hu and Keith C. C. Chan,
Ultizing both topological and attribute informatin for protein complex identification in PPI Networks,
IEEE TCBB, vol. 10(3), pp. 780-792, 2013
:: DESCRIPTION
CoAch: A Core-Attachment based Method to Detect Protein Complexes in PPI Networks
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2009 Jun 2;10:169. doi: 10.1186/1471-2105-10-169.
A core-attachment based method to detect protein complexes in PPI networks.
Wu M1, Li X, Kwoh CK, Ng SK.
:: DESCRIPTION
With ComplexCorr you can predict the connectivity of subunits within large protein complexes.
::DEVELOPER
Department of Genome Oriented Bioinformatics, Technische Universität München
:: SCREENSHOTS
N/a
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
J Mol Biol. 2010 Nov 19;404(1):158-71. doi: 10.1016/j.jmb.2010.09.029. Epub 2010 Sep 22.
Coevolution predicts direct interactions between mtDNA-encoded and nDNA-encoded subunits of oxidative phosphorylation complex i.
Gershoni M1, Fuchs A, Shani N, Fridman Y, Corral-Debrinski M, Aharoni A, Frishman D, Mishmar D.
:: DESCRIPTION
The algorithm TSN-PCD was developed to identify protein complexes from these TSNs (time-sequenced subnetworks).
DFM-CIN is proposed to discover functional modules based on the identified complexes.
::DEVELOPER
Min Li (limin@mail.csu.edu.cn)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2012 May 23;13:109. doi: 10.1186/1471-2105-13-109.
Towards the identification of protein complexes and functional modules by integrating PPI network and gene expression data.
Li M1, Wu X, Wang J, Pan Y.
:: DESCRIPTION
PLW (Probabilistic Local Walks) is a graph clustering algorithm, and was designed to detect protein complexes in protein-protein interaction (PPI) networks with high accuracy and efficiency.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Genomics. 2013;14 Suppl 5:S15. doi: 10.1186/1471-2164-14-S5-S15. Epub 2013 Oct 16.
PLW: Probabilistic Local Walks for detecting protein complexes from protein interaction networks.
Wong D, Li XL, Wu M, Zheng J, Ng SK.
:: DESCRIPTION
ClusterONE (Clustering with Overlapping Neighborhood Expansion) is a graph clustering algorithm that is able to handle weighted graphs and readily generates overlapping clusters. Owing to these properties, it is especially useful for detecting protein complexes in protein-protein interaction networks with associated confidence values.
::DEVELOPER
:: SCREENSHOTS
N/A
::REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Nat Methods. 2012 Mar 18;9(5):471-2. doi: 10.1038/nmeth.1938.
Detecting overlapping protein complexes in protein-protein interaction networks.
Nepusz T1, Yu H, Paccanaro A.
:: DESCRIPTION
PEWCC is a novel graph mining algorithm to identify protein complexes from protein-protein interaction data.
::DEVELOPER
Nazar Zaki , Bioinformatics Laboratory, UAE University.
:: SCREENSHOTS
N/A
::REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2013 May 20;14:163. doi: 10.1186/1471-2105-14-163.
Protein complex detection using interaction reliability assessment and weighted clustering coefficient.
Zaki N, Efimov D, Berengueres J.
