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Results: 1 to 20 of 96

1.

Flaws in evaluation schemes for pair-input computational predictions.

Park Y, Marcotte EM.

Nat Methods. 2012 Dec;9(12):1134-6. doi: 10.1038/nmeth.2259. No abstract available.

PMID:
23223166
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Computational reconstruction of protein-protein interaction networks: algorithms and issues.

Franzosa E, Linghu B, Xia Y.

Methods Mol Biol. 2009;541:89-100. doi: 10.1007/978-1-59745-243-4_5. Review.

PMID:
19381528
[PubMed - indexed for MEDLINE]
3.

Systematic computational prediction of protein interaction networks.

Lees JG, Heriche JK, Morilla I, Ranea JA, Orengo CA.

Phys Biol. 2011 Jun;8(3):035008. doi: 10.1088/1478-3975/8/3/035008. Epub 2011 May 13.

PMID:
21572181
[PubMed - indexed for MEDLINE]
4.

False positive reduction in protein-protein interaction predictions using gene ontology annotations.

Mahdavi MA, Lin YH.

BMC Bioinformatics. 2007 Jul 23;8:262.

PMID:
17645798
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Genome-wide studies of protein-protein interaction.

Janin J, Séraphin B.

Curr Opin Struct Biol. 2003 Jun;13(3):383-8. Review.

PMID:
12831891
[PubMed - indexed for MEDLINE]
6.

InSite: a computational method for identifying protein-protein interaction binding sites on a proteome-wide scale.

Wang H, Segal E, Ben-Hur A, Li QR, Vidal M, Koller D.

Genome Biol. 2007;8(9):R192.

PMID:
17868464
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Computational methods for protein interaction and structural prediction.

Chen YP.

Biochim Biophys Acta. 2012 Dec;1824(12):1416-7. doi: 10.1016/j.bbapap.2012.09.011. No abstract available.

PMID:
23084263
[PubMed - indexed for MEDLINE]
Free Article
8.

Graemlin: general and robust alignment of multiple large interaction networks.

Flannick J, Novak A, Srinivasan BS, McAdams HH, Batzoglou S.

Genome Res. 2006 Sep;16(9):1169-81. Epub 2006 Aug 9.

PMID:
16899655
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

ZDOCK and RDOCK performance in CAPRI rounds 3, 4, and 5.

Wiehe K, Pierce B, Mintseris J, Tong WW, Anderson R, Chen R, Weng Z.

Proteins. 2005 Aug 1;60(2):207-13.

PMID:
15981263
[PubMed - indexed for MEDLINE]
10.

AVID: an integrative framework for discovering functional relationships among proteins.

Jiang T, Keating AE.

BMC Bioinformatics. 2005 Jun 1;6:136.

PMID:
15929793
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Mining and analysing scale-free protein-protein interaction network.

Hu X.

Int J Bioinform Res Appl. 2005;1(1):81-101.

PMID:
18048123
[PubMed - indexed for MEDLINE]
12.

An analysis pipeline for the inference of protein-protein interaction networks.

Taylor RC, Singhal M, Daly DS, Gilmore J, Cannon WR, Domico K, White AM, Auberry DL, Auberry KJ, Hooker BS, Hurst G, McDermott JE, McDonald WH, Pelletier DA, Schmoyer D, Wiley HS.

Int J Data Min Bioinform. 2009;3(4):409-30.

PMID:
20052905
[PubMed - indexed for MEDLINE]
13.

Identifying protein complexes in protein-protein interaction networks by using clique seeds and graph entropy.

Chen B, Shi J, Zhang S, Wu FX.

Proteomics. 2013 Jan;13(2):269-77. doi: 10.1002/pmic.201200336. Epub 2012 Nov 29.

PMID:
23112006
[PubMed - indexed for MEDLINE]
14.

Data mining in protein interactomics. Six computational research challenges and opportunities.

Chen JY, Sivachenko AY.

IEEE Eng Med Biol Mag. 2005 May-Jun;24(3):95-102. No abstract available.

PMID:
15971847
[PubMed - indexed for MEDLINE]
15.

Computational detection of protein complexes in AP-MS experiments.

Choi H.

Proteomics. 2012 May;12(10):1663-8. doi: 10.1002/pmic.201100508. Review.

PMID:
22711593
[PubMed - indexed for MEDLINE]
16.

Ultra-fast FFT protein docking on graphics processors.

Ritchie DW, Venkatraman V.

Bioinformatics. 2010 Oct 1;26(19):2398-405. doi: 10.1093/bioinformatics/btq444. Epub 2010 Aug 4.

PMID:
20685958
[PubMed - indexed for MEDLINE]
Free Article
17.

Docking and scoring protein interactions: CAPRI 2009.

Lensink MF, Wodak SJ.

Proteins. 2010 Nov 15;78(15):3073-84. doi: 10.1002/prot.22818.

PMID:
20806235
[PubMed - indexed for MEDLINE]
18.

Computational methods for the prediction of protein-protein interactions.

Xia JF, Wang SL, Lei YK.

Protein Pept Lett. 2010 Sep;17(9):1069-78.

PMID:
20509849
[PubMed - indexed for MEDLINE]
19.

Large scale statistical prediction of protein-protein interaction by potentially interacting domain (PID) pair.

Kim WK, Park J, Suh JK.

Genome Inform. 2002;13:42-50.

PMID:
14571373
[PubMed - indexed for MEDLINE]
20.

A correlated motif approach for finding short linear motifs from protein interaction networks.

Tan SH, Hugo W, Sung WK, Ng SK.

BMC Bioinformatics. 2006 Nov 16;7:502.

PMID:
17107624
[PubMed - indexed for MEDLINE]
Free PMC Article

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