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Items: 1 to 20 of 290

1.

Protein complex detection via weighted ensemble clustering based on Bayesian nonnegative matrix factorization.

Ou-Yang L, Dai DQ, Zhang XF.

PLoS One. 2013 May 2;8(5):e62158. doi: 10.1371/journal.pone.0062158. Print 2013.

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.

A new method for the discovery of essential proteins.

Zhang X, Xu J, Xiao WX.

PLoS One. 2013;8(3):e58763. doi: 10.1371/journal.pone.0058763. Epub 2013 Mar 21.

4.

Protein complex prediction via cost-based clustering.

King AD, Przulj N, Jurisica I.

Bioinformatics. 2004 Nov 22;20(17):3013-20. Epub 2004 Jun 4.

5.

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.

6.

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
7.

Clustering and overlapping modules detection in PPI network based on IBFO.

Lei X, Wu S, Ge L, Zhang A.

Proteomics. 2013 Jan;13(2):278-90. doi: 10.1002/pmic.201200309.

PMID:
23229795
8.

Supervised maximum-likelihood weighting of composite protein networks for complex prediction.

Yong CH, Liu G, Chua HN, Wong L.

BMC Syst Biol. 2012;6 Suppl 2:S13. doi: 10.1186/1752-0509-6-S2-S13. Epub 2012 Dec 12.

9.

Development and implementation of an algorithm for detection of protein complexes in large interaction networks.

Altaf-Ul-Amin M, Shinbo Y, Mihara K, Kurokawa K, Kanaya S.

BMC Bioinformatics. 2006 Apr 14;7:207.

10.

A degree-distribution based hierarchical agglomerative clustering algorithm for protein complexes identification.

Yu L, Gao L, Li K, Zhao Y, Chiu DK.

Comput Biol Chem. 2011 Oct 12;35(5):298-307. doi: 10.1016/j.compbiolchem.2011.07.005. Epub 2011 Jul 20.

PMID:
22000801
11.

A novel link prediction algorithm for reconstructing protein-protein interaction networks by topological similarity.

Lei C, Ruan J.

Bioinformatics. 2013 Feb 1;29(3):355-64. doi: 10.1093/bioinformatics/bts688. Epub 2012 Dec 11.

12.

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.

13.

Identification of functional modules in a PPI network by clique percolation clustering.

Zhang S, Ning X, Zhang XS.

Comput Biol Chem. 2006 Dec;30(6):445-51. Epub 2006 Nov 13.

PMID:
17098476
14.

Detecting temporal protein complexes from dynamic protein-protein interaction networks.

Ou-Yang L, Dai DQ, Li XL, Wu M, Zhang XF, Yang P.

BMC Bioinformatics. 2014 Oct 4;15:335. doi: 10.1186/1471-2105-15-335.

15.

GraphCrunch 2: Software tool for network modeling, alignment and clustering.

Kuchaiev O, Stevanović A, Hayes W, Pržulj N.

BMC Bioinformatics. 2011 Jan 19;12:24. doi: 10.1186/1471-2105-12-24.

16.

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
17.

Efficient and accurate Greedy Search Methods for mining functional modules in protein interaction networks.

He J, Li C, Ye B, Zhong W.

BMC Bioinformatics. 2012 Jun 25;13 Suppl 10:S19. doi: 10.1186/1471-2105-13-S10-S19.

18.

Improved method for protein complex detection using bottleneck proteins.

Ahn J, Lee DH, Yoon Y, Yeu Y, Park S.

BMC Med Inform Decis Mak. 2013;13 Suppl 1:S5. doi: 10.1186/1472-6947-13-S1-S5. Epub 2013 Apr 5.

19.

Detection of functional modules from protein interaction networks with an enhanced random walk based algorithm.

Cai B, Wang H, Zheng H, Wang H.

Int J Comput Biol Drug Des. 2011;4(3):290-306. doi: 10.1504/IJCBDD.2011.041416. Epub 2011 Jul 21.

PMID:
21778561
20.

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
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