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Items: 1 to 20 of 378

1.

Modular biological function is most effectively captured by combining molecular interaction data types.

Ames RM, Macpherson JI, Pinney JW, Lovell SC, Robertson DL.

PLoS One. 2013 May 3;8(5):e62670. doi: 10.1371/journal.pone.0062670. Print 2013.

2.
3.

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
4.

Using PPI network autocorrelation in hierarchical multi-label classification trees for gene function prediction.

Stojanova D, Ceci M, Malerba D, Dzeroski S.

BMC Bioinformatics. 2013 Sep 26;14:285. doi: 10.1186/1471-2105-14-285.

5.

Integration of molecular network data reconstructs Gene Ontology.

Gligorijević V, Janjić V, Pržulj N.

Bioinformatics. 2014 Sep 1;30(17):i594-600. doi: 10.1093/bioinformatics/btu470.

6.

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.

7.

Disentangling the multigenic and pleiotropic nature of molecular function.

Stoney RA, Ames RM, Nenadic G, Robertson DL, Schwartz JM.

BMC Syst Biol. 2015;9 Suppl 6:S3. doi: 10.1186/1752-0509-9-S6-S3. Epub 2015 Dec 9.

8.

Topology-function conservation in protein-protein interaction networks.

Davis D, Yaveroğlu ÖN, Malod-Dognin N, Stojmirovic A, Pržulj N.

Bioinformatics. 2015 May 15;31(10):1632-9. doi: 10.1093/bioinformatics/btv026. Epub 2015 Jan 20.

9.

MIPCE: an MI-based protein complex extraction technique.

Mahanta P, Bhattacharyya DK, Ghosh A.

J Biosci. 2015 Oct;40(4):701-8.

10.

Fault tolerance in protein interaction networks: stable bipartite subgraphs and redundant pathways.

Brady A, Maxwell K, Daniels N, Cowen LJ.

PLoS One. 2009;4(4):e5364. doi: 10.1371/journal.pone.0005364. Epub 2009 Apr 28.

11.

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.

12.

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.

PMID:
16837529
13.

VisANT: an online visualization and analysis tool for biological interaction data.

Hu Z, Mellor J, Wu J, DeLisi C.

BMC Bioinformatics. 2004 Feb 19;5:17.

14.

WNP: a novel algorithm for gene products annotation from weighted functional networks.

Magi A, Tattini L, Benelli M, Giusti B, Abbate R, Ruffo S.

PLoS One. 2012;7(6):e38767. doi: 10.1371/journal.pone.0038767. Epub 2012 Jun 28.

15.

Functional annotation of hierarchical modularity.

Padmanabhan K, Wang K, Samatova NF.

PLoS One. 2012;7(4):e33744. doi: 10.1371/journal.pone.0033744. Epub 2012 Apr 4.

16.

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
17.

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
18.

A copula method for modeling directional dependence of genes.

Kim JM, Jung YS, Sungur EA, Han KH, Park C, Sohn I.

BMC Bioinformatics. 2008 May 1;9:225. doi: 10.1186/1471-2105-9-225.

19.

Predicting protein function from protein/protein interaction data: a probabilistic approach.

Letovsky S, Kasif S.

Bioinformatics. 2003;19 Suppl 1:i197-204.

PMID:
12855458
20.

From Function to Interaction: A New Paradigm for Accurately Predicting Protein Complexes Based on Protein-to-Protein Interaction Networks.

Xu B, Guan J.

IEEE/ACM Trans Comput Biol Bioinform. 2014 Jul-Aug;11(4):616-27. doi: 10.1109/TCBB.2014.2306825.

PMID:
26356332

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