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Items: 1 to 20 of 202

1.

Improving protein function prediction using domain and protein complexes in PPI networks.

Peng W, Wang J, Cai J, Chen L, Li M, Wu FX.

BMC Syst Biol. 2014 Mar 24;8:35. doi: 10.1186/1752-0509-8-35.

2.

A multi-network clustering method for detecting protein complexes from multiple heterogeneous networks.

Ou-Yang L, Yan H, Zhang XF.

BMC Bioinformatics. 2017 Dec 1;18(Suppl 13):463. doi: 10.1186/s12859-017-1877-4.

3.

Inferring protein function by domain context similarities in protein-protein interaction networks.

Zhang S, Chen H, Liu K, Sun Z.

BMC Bioinformatics. 2009 Dec 2;10:395. doi: 10.1186/1471-2105-10-395.

4.

A New Method for Predicting Protein Functions From Dynamic Weighted Interactome Networks.

Zhao B, Wang J, Li M, Li X, Li Y, Wu FX, Pan Y.

IEEE Trans Nanobioscience. 2016 Mar;15(2):131-9. doi: 10.1109/TNB.2016.2536161. Epub 2016 Mar 1.

PMID:
26955047
5.

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.

6.

SiPAN: simultaneous prediction and alignment of protein-protein interaction networks.

Alkan F, Erten C.

Bioinformatics. 2015 Jul 15;31(14):2356-63. doi: 10.1093/bioinformatics/btv160. Epub 2015 Mar 18.

PMID:
25788620
7.

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
8.

Iteration method for predicting essential proteins based on orthology and protein-protein interaction networks.

Peng W, Wang J, Wang W, Liu Q, Wu FX, Pan Y.

BMC Syst Biol. 2012 Jul 18;6:87. doi: 10.1186/1752-0509-6-87.

9.

UDoNC: An Algorithm for Identifying Essential Proteins Based on Protein Domains and Protein-Protein Interaction Networks.

Peng W, Wang J, Cheng Y, Lu Y, Wu F, Pan Y.

IEEE/ACM Trans Comput Biol Bioinform. 2015 Mar-Apr;12(2):276-88. doi: 10.1109/TCBB.2014.2338317.

PMID:
26357216
10.

Identification of protein complexes from multi-relationship protein interaction networks.

Li X, Wang J, Zhao B, Wu FX, Pan Y.

Hum Genomics. 2016 Jul 25;10 Suppl 2:17. doi: 10.1186/s40246-016-0069-z.

11.

Identification of protein complexes by integrating multiple alignment of protein interaction networks.

Ma CY, Chen YP, Berger B, Liao CS.

Bioinformatics. 2017 Jun 1;33(11):1681-1688. doi: 10.1093/bioinformatics/btx043.

PMID:
28130237
12.

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
13.

Protein complex prediction in large ontology attributed protein-protein interaction networks.

Zhang Y, Lin H, Yang Z, Wang J, Li Y, Xu B.

IEEE/ACM Trans Comput Biol Bioinform. 2013 May-Jun;10(3):729-41. doi: 10.1109/TCBB.2013.86.

PMID:
24091405
14.

Discovering protein complexes in protein interaction networks via exploring the weak ties effect.

Ma X, Gao L.

BMC Syst Biol. 2012;6 Suppl 1:S6. doi: 10.1186/1752-0509-6-S1-S6. Epub 2012 Jul 16.

15.

A method for predicting protein complex in dynamic PPI networks.

Zhang Y, Lin H, Yang Z, Wang J, Liu Y, Sang S.

BMC Bioinformatics. 2016 Jul 25;17 Suppl 7:229. doi: 10.1186/s12859-016-1101-y.

16.

Identifying protein complexes based on multiple topological structures in PPI networks.

Chen B, Wu FX.

IEEE Trans Nanobioscience. 2013 Sep;12(3):165-72. doi: 10.1109/TNB.2013.2264097. Epub 2013 Aug 21.

PMID:
23974659
17.

Identifying conserved protein complexes between species by constructing interolog networks.

Nguyen PV, Srihari S, Leong HW.

BMC Bioinformatics. 2013;14 Suppl 16:S8. doi: 10.1186/1471-2105-14-S16-S8. Epub 2013 Oct 22.

18.

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.

19.

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.

20.

A linear-time algorithm for predicting functional annotations from PPI networks.

Wu Y, Lonardi S.

J Bioinform Comput Biol. 2008 Dec;6(6):1049-65.

PMID:
19090017

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