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Items: 1 to 20 of 163

1.

Identifying functional modules in interaction networks through overlapping Markov clustering.

Shih YK, Parthasarathy S.

Bioinformatics. 2012 Sep 15;28(18):i473-i479. doi: 10.1093/bioinformatics/bts370.

2.

MCL-CAw: a refinement of MCL for detecting yeast complexes from weighted PPI networks by incorporating core-attachment structure.

Srihari S, Ning K, Leong HW.

BMC Bioinformatics. 2010 Oct 12;11:504. doi: 10.1186/1471-2105-11-504.

3.

Markov clustering versus affinity propagation for the partitioning of protein interaction graphs.

Vlasblom J, Wodak SJ.

BMC Bioinformatics. 2009 Mar 30;10:99. doi: 10.1186/1471-2105-10-99.

4.

A hybrid clustering algorithm for identifying modules in Protein-Protein Interaction networks.

Yu L, Gao L, Sun PG.

Int J Data Min Bioinform. 2010;4(5):600-15.

PMID:
21133044
5.

Functional module identification in protein interaction networks by interaction patterns.

Wang Y, Qian X.

Bioinformatics. 2014 Jan 1;30(1):81-93. doi: 10.1093/bioinformatics/btt569. Epub 2013 Oct 1.

6.

How and when should interactome-derived clusters be used to predict functional modules and protein function?

Song J, Singh M.

Bioinformatics. 2009 Dec 1;25(23):3143-50. doi: 10.1093/bioinformatics/btp551. Epub 2009 Sep 21.

7.

C-element: a new clustering algorithm to find high quality functional modules in PPI networks.

Ghasemi M, Rahgozar M, Bidkhori G, Masoudi-Nejad A.

PLoS One. 2013 Sep 5;8(9):e72366. doi: 10.1371/journal.pone.0072366. eCollection 2013.

8.

An ensemble framework for clustering protein-protein interaction networks.

Asur S, Ucar D, Parthasarathy S.

Bioinformatics. 2007 Jul 1;23(13):i29-40.

9.

Joint clustering of protein interaction networks through Markov random walk.

Wang Y, Qian X.

BMC Syst Biol. 2014;8 Suppl 1:S9. doi: 10.1186/1752-0509-8-S1-S9. Epub 2014 Jan 24.

10.

Evaluation of clustering algorithms for protein-protein interaction networks.

Brohée S, van Helden J.

BMC Bioinformatics. 2006 Nov 6;7:488.

11.

The relative vertex clustering value--a new criterion for the fast discovery of functional modules in protein interaction networks.

Ibrahim ZM, Ngom A.

BMC Bioinformatics. 2015;16 Suppl 4:S3. doi: 10.1186/1471-2105-16-S4-S3. Epub 2015 Feb 23.

12.

Identification of hierarchical and overlapping functional modules in PPI networks.

Wang J, Ren J, Li M, Wu FX.

IEEE Trans Nanobioscience. 2012 Dec;11(4):386-93. doi: 10.1109/TNB.2012.2210907. Epub 2012 Aug 30.

PMID:
22955967
13.

A fast hierarchical clustering algorithm for functional modules discovery in protein interaction networks.

Wang J, Li M, Chen J, Pan Y.

IEEE/ACM Trans Comput Biol Bioinform. 2011 May-Jun;8(3):607-20. doi: 10.1109/TCBB.2010.75.

PMID:
20733244
14.

Detecting functional modules in the yeast protein-protein interaction network.

Chen J, Yuan B.

Bioinformatics. 2006 Sep 15;22(18):2283-90. Epub 2006 Jul 12.

15.

A novel subgradient-based optimization algorithm for blockmodel functional module identification.

Wang Y, Qian X.

BMC Bioinformatics. 2013;14 Suppl 2:S23. doi: 10.1186/1471-2105-14-S2-S23. Epub 2013 Jan 21.

16.

Graphlet-based edge clustering reveals pathogen-interacting proteins.

Solava RW, Michaels RP, Milenkovic T.

Bioinformatics. 2012 Sep 15;28(18):i480-i486. doi: 10.1093/bioinformatics/bts376.

17.

Towards the identification of protein complexes and functional modules by integrating PPI network and gene expression data.

Li M, Wu X, Wang J, Pan Y.

BMC Bioinformatics. 2012 May 23;13:109. doi: 10.1186/1471-2105-13-109.

18.

Growing functional modules from a seed protein via integration of protein interaction and gene expression data.

Maraziotis IA, Dimitrakopoulou K, Bezerianos A.

BMC Bioinformatics. 2007 Oct 23;8:408.

19.

Identification of functional modules in a PPI network by bounded diameter clustering.

Sohaee N, Forst CV.

J Bioinform Comput Biol. 2010 Dec;8(6):929-43.

PMID:
21121019
20.

Predicting protein complexes from weighted protein-protein interaction graphs with a novel unsupervised methodology: Evolutionary enhanced Markov clustering.

Theofilatos K, Pavlopoulou N, Papasavvas C, Likothanassis S, Dimitrakopoulos C, Georgopoulos E, Moschopoulos C, Mavroudi S.

Artif Intell Med. 2015 Mar;63(3):181-9. doi: 10.1016/j.artmed.2014.12.012. Epub 2015 Feb 18.

PMID:
25765008
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