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Results: 1 to 20 of 102

1.

Binding interface prediction by combining protein-protein docking results.

Hwang H, Vreven T, Weng Z.

Proteins. 2014 Jan;82(1):57-66. doi: 10.1002/prot.24354. Epub 2013 Aug 31.

PMID:
23836482
[PubMed - indexed for MEDLINE]
2.

Protein-RNA interface residue prediction using machine learning: an assessment of the state of the art.

Walia RR, Caragea C, Lewis BA, Towfic F, Terribilini M, El-Manzalawy Y, Dobbs D, Honavar V.

BMC Bioinformatics. 2012 May 10;13:89. doi: 10.1186/1471-2105-13-89.

PMID:
22574904
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Protein docking prediction using predicted protein-protein interface.

Li B, Kihara D.

BMC Bioinformatics. 2012 Jan 10;13:7. doi: 10.1186/1471-2105-13-7.

PMID:
22233443
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Prediction of protein-protein binding site by using core interface residue and support vector machine.

Li N, Sun Z, Jiang F.

BMC Bioinformatics. 2008 Dec 22;9:553. doi: 10.1186/1471-2105-9-553.

PMID:
19102736
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Predicting protein-ligand binding site using support vector machine with protein properties.

Wong GY, Leung FH, Ling SH.

IEEE/ACM Trans Comput Biol Bioinform. 2013 Nov-Dec;10(6):1517-29. doi: 10.1109/TCBB.2013.126.

PMID:
24407309
[PubMed - indexed for MEDLINE]
6.

APIS: accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility.

Xia JF, Zhao XM, Song J, Huang DS.

BMC Bioinformatics. 2010 Apr 8;11:174. doi: 10.1186/1471-2105-11-174.

PMID:
20377884
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Prediction of interface residues in protein-protein complexes by a consensus neural network method: test against NMR data.

Chen H, Zhou HX.

Proteins. 2005 Oct 1;61(1):21-35.

PMID:
16080151
[PubMed - indexed for MEDLINE]
8.

HemeBIND: a novel method for heme binding residue prediction by combining structural and sequence information.

Liu R, Hu J.

BMC Bioinformatics. 2011 May 26;12:207. doi: 10.1186/1471-2105-12-207.

PMID:
21612668
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

PPIcons: identification of protein-protein interaction sites in selected organisms.

Sriwastava BK, Basu S, Maulik U, Plewczynski D.

J Mol Model. 2013 Sep;19(9):4059-70. doi: 10.1007/s00894-013-1886-9. Epub 2013 Jun 2.

PMID:
23729008
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Detection of outlier residues for improving interface prediction in protein heterocomplexes.

Chen P, Wong L, Li J.

IEEE/ACM Trans Comput Biol Bioinform. 2012 Jul-Aug;9(4):1155-65. doi: 10.1109/TCBB.2012.58.

PMID:
22529331
[PubMed - indexed for MEDLINE]
11.

Blind predictions of protein interfaces by docking calculations in CAPRI.

Lensink MF, Wodak SJ.

Proteins. 2010 Nov 15;78(15):3085-95. doi: 10.1002/prot.22850.

PMID:
20839234
[PubMed - indexed for MEDLINE]
12.

Prediction of protein binding sites in protein structures using hidden Markov support vector machine.

Liu B, Wang X, Lin L, Tang B, Dong Q, Wang X.

BMC Bioinformatics. 2009 Nov 20;10:381. doi: 10.1186/1471-2105-10-381.

PMID:
19925685
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Exploiting structural and topological information to improve prediction of RNA-protein binding sites.

Maetschke SR, Yuan Z.

BMC Bioinformatics. 2009 Oct 18;10:341. doi: 10.1186/1471-2105-10-341.

PMID:
19835626
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

PAIRpred: partner-specific prediction of interacting residues from sequence and structure.

Minhas Fu, Geiss BJ, Ben-Hur A.

Proteins. 2014 Jul;82(7):1142-55. doi: 10.1002/prot.24479. Epub 2013 Dec 6.

PMID:
24243399
[PubMed - in process]
15.

Prediction of protein-protein interaction sites using support vector machines.

Koike A, Takagi T.

Protein Eng Des Sel. 2004 Feb;17(2):165-73. Epub 2004 Jan 20.

PMID:
15047913
[PubMed - indexed for MEDLINE]
Free Article
16.

Using support vector machine combined with post-processing procedure to improve prediction of interface residues in transient complexes.

Liu R, Zhou Y.

Protein J. 2009 Oct;28(7-8):369-74. doi: 10.1007/s10930-009-9203-2.

PMID:
19760494
[PubMed - indexed for MEDLINE]
17.

DNABind: a hybrid algorithm for structure-based prediction of DNA-binding residues by combining machine learning- and template-based approaches.

Liu R, Hu J.

Proteins. 2013 Nov;81(11):1885-99. doi: 10.1002/prot.24330. Epub 2013 Aug 16.

PMID:
23737141
[PubMed - indexed for MEDLINE]
18.

Improved prediction of protein-protein binding sites using a support vector machines approach.

Bradford JR, Westhead DR.

Bioinformatics. 2005 Apr 15;21(8):1487-94. Epub 2004 Dec 21.

PMID:
15613384
[PubMed - indexed for MEDLINE]
Free Article
19.

Integrating atom-based and residue-based scoring functions for protein-protein docking.

Vreven T, Hwang H, Weng Z.

Protein Sci. 2011 Sep;20(9):1576-86. doi: 10.1002/pro.687. Epub 2011 Aug 8.

PMID:
21739500
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Sequence-based identification of interface residues by an integrative profile combining hydrophobic and evolutionary information.

Chen P, Li J.

BMC Bioinformatics. 2010 Jul 28;11:402. doi: 10.1186/1471-2105-11-402.

PMID:
20667087
[PubMed - indexed for MEDLINE]
Free PMC Article

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