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Items: 1 to 20 of 42

1.

Protein complex prediction based on k-connected subgraphs in protein interaction network.

Habibi M, Eslahchi C, Wong L.

BMC Syst Biol. 2010 Sep 16;4:129. doi: 10.1186/1752-0509-4-129.

2.

Discovering conditional co-regulated protein complexes by integrating diverse data sources.

Luo F, Liu J, Li J.

BMC Syst Biol. 2010 Sep 13;4 Suppl 2:S4. doi: 10.1186/1752-0509-4-S2-S4.

3.

Identifying dysfunctional crosstalk of pathways in various regions of Alzheimer's disease brains.

Liu ZP, Wang Y, Zhang XS, Chen L.

BMC Syst Biol. 2010 Sep 13;4 Suppl 2:S11. doi: 10.1186/1752-0509-4-S2-S11.

4.

Determining modular organization of protein interaction networks by maximizing modularity density.

Zhang S, Ning XM, Ding C, Zhang XS.

BMC Syst Biol. 2010 Sep 13;4 Suppl 2:S10. doi: 10.1186/1752-0509-4-S2-S10.

5.

Computational approaches for detecting protein complexes from protein interaction networks: a survey.

Li X, Wu M, Kwoh CK, Ng SK.

BMC Genomics. 2010 Feb 10;11 Suppl 1:S3. doi: 10.1186/1471-2164-11-S1-S3.

6.

A core-attachment based method to detect protein complexes in PPI networks.

Wu M, Li X, Kwoh CK, Ng SK.

BMC Bioinformatics. 2009 Jun 2;10:169. doi: 10.1186/1471-2105-10-169.

7.

Protein complex prediction based on mutually exclusive interactions in protein interaction network.

Jung SH, Jang WH, Hur HY, Hyun B, Han DS.

Genome Inform. 2008;21:77-88.

8.

Predicting protein complexes from PPI data: a core-attachment approach.

Leung HC, Xiang Q, Yiu SM, Chin FY.

J Comput Biol. 2009 Feb;16(2):133-44. doi: 10.1089/cmb.2008.01TT.

PMID:
19193141
9.

An in vivo map of the yeast protein interactome.

Tarassov K, Messier V, Landry CR, Radinovic S, Serna Molina MM, Shames I, Malitskaya Y, Vogel J, Bussey H, Michnick SW.

Science. 2008 Jun 13;320(5882):1465-70. doi: 10.1126/science.1153878. Epub 2008 May 8.

10.

From pull-down data to protein interaction networks and complexes with biological relevance.

Zhang B, Park BH, Karpinets T, Samatova NF.

Bioinformatics. 2008 Apr 1;24(7):979-86. doi: 10.1093/bioinformatics/btn036. Epub 2008 Feb 26.

PMID:
18304937
11.

Discovering protein complexes in dense reliable neighborhoods of protein interaction networks.

Li XL, Foo CS, Ng SK.

Comput Syst Bioinformatics Conf. 2007;6:157-68.

12.

Using indirect protein-protein interactions for protein complex predication.

Chua HN, Ning K, Sung WK, Leong HW, Wong L.

Comput Syst Bioinformatics Conf. 2007;6:97-109.

13.

Structure and tie strengths in mobile communication networks.

Onnela JP, Saramäki J, Hyvönen J, Szabó G, Lazer D, Kaski K, Kertész J, Barabási AL.

Proc Natl Acad Sci U S A. 2007 May 1;104(18):7332-6. Epub 2007 Apr 24.

14.

Evaluation of clustering algorithms for protein-protein interaction networks.

Brohée S, van Helden J.

BMC Bioinformatics. 2006 Nov 6;7:488.

15.

Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactions.

Chua HN, Sung WK, Wong L.

Bioinformatics. 2006 Jul 1;22(13):1623-30. Epub 2006 Apr 21. Erratum in: Bioinformatics. 2008 Feb 1;24(3):452.

PMID:
16632496
16.

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.

17.

Global landscape of protein complexes in the yeast Saccharomyces cerevisiae.

Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP, Punna T, Peregrín-Alvarez JM, Shales M, Zhang X, Davey M, Robinson MD, Paccanaro A, Bray JE, Sheung A, Beattie B, Richards DP, Canadien V, Lalev A, Mena F, Wong P, Starostine A, Canete MM, Vlasblom J, Wu S, Orsi C, Collins SR, Chandran S, Haw R, Rilstone JJ, Gandi K, Thompson NJ, Musso G, St Onge P, Ghanny S, Lam MH, Butland G, Altaf-Ul AM, Kanaya S, Shilatifard A, O'Shea E, Weissman JS, Ingles CJ, Hughes TR, Parkinson J, Gerstein M, Wodak SJ, Emili A, Greenblatt JF.

Nature. 2006 Mar 30;440(7084):637-43. Epub 2006 Mar 22.

PMID:
16554755
18.

CFinder: locating cliques and overlapping modules in biological networks.

Adamcsek B, Palla G, Farkas IJ, Derényi I, Vicsek T.

Bioinformatics. 2006 Apr 15;22(8):1021-3. Epub 2006 Feb 10.

PMID:
16473872
19.

Proteome survey reveals modularity of the yeast cell machinery.

Gavin AC, Aloy P, Grandi P, Krause R, Boesche M, Marzioch M, Rau C, Jensen LJ, Bastuck S, Dümpelfeld B, Edelmann A, Heurtier MA, Hoffman V, Hoefert C, Klein K, Hudak M, Michon AM, Schelder M, Schirle M, Remor M, Rudi T, Hooper S, Bauer A, Bouwmeester T, Casari G, Drewes G, Neubauer G, Rick JM, Kuster B, Bork P, Russell RB, Superti-Furga G.

Nature. 2006 Mar 30;440(7084):631-6. Epub 2006 Jan 22.

PMID:
16429126
20.

GO::TermFinder--open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes.

Boyle EI, Weng S, Gollub J, Jin H, Botstein D, Cherry JM, Sherlock G.

Bioinformatics. 2004 Dec 12;20(18):3710-5. Epub 2004 Aug 5.

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