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Items: 1 to 20 of 93

1.

Detecting mutually exclusive interactions in protein-protein interaction maps.

Sánchez Claros C, Tramontano A.

PLoS One. 2012;7(6):e38765. doi: 10.1371/journal.pone.0038765. Epub 2012 Jun 8.

2.

Oligomerisation status and evolutionary conservation of interfaces of protein structural domain superfamilies.

Sukhwal A, Sowdhamini R.

Mol Biosyst. 2013 Jul;9(7):1652-61. doi: 10.1039/c3mb25484d. Epub 2013 Mar 27.

PMID:
23532342
3.

3D-partner: a web server to infer interacting partners and binding models.

Chen YC, Lo YS, Hsu WC, Yang JM.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W561-7. Epub 2007 May 21.

4.

GIANT: pattern analysis of molecular interactions in 3D structures of protein-small ligand complexes.

Kasahara K, Kinoshita K.

BMC Bioinformatics. 2014 Jan 14;15:12. doi: 10.1186/1471-2105-15-12.

5.

STRING 8--a global view on proteins and their functional interactions in 630 organisms.

Jensen LJ, Kuhn M, Stark M, Chaffron S, Creevey C, Muller J, Doerks T, Julien P, Roth A, Simonovic M, Bork P, von Mering C.

Nucleic Acids Res. 2009 Jan;37(Database issue):D412-6. doi: 10.1093/nar/gkn760. Epub 2008 Oct 21.

6.

PeptideMine--a webserver for the design of peptides for protein-peptide binding studies derived from protein-protein interactomes.

Shameer K, Madan LL, Veeranna S, Gopal B, Sowdhamini R.

BMC Bioinformatics. 2010 Sep 22;11:473. doi: 10.1186/1471-2105-11-473.

7.

Structural relationships among proteins with different global topologies and their implications for function annotation strategies.

Petrey D, Fischer M, Honig B.

Proc Natl Acad Sci U S A. 2009 Oct 13;106(41):17377-82. doi: 10.1073/pnas.0907971106. Epub 2009 Sep 24.

8.

Navigating the global protein-protein interaction landscape using iRefWeb.

Turinsky AL, Razick S, Turner B, Donaldson IM, Wodak SJ.

Methods Mol Biol. 2014;1091:315-31. doi: 10.1007/978-1-62703-691-7_22.

PMID:
24203342
9.

Molecular principles of human virus protein-protein interactions.

Halehalli RR, Nagarajaram HA.

Bioinformatics. 2015 Apr 1;31(7):1025-33. doi: 10.1093/bioinformatics/btu763. Epub 2014 Nov 21.

PMID:
25417202
10.

The MoVIN server for the analysis of protein interaction networks.

Marcatili P, Bussotti G, Tramontano A.

BMC Bioinformatics. 2008 Mar 26;9 Suppl 2:S11. doi: 10.1186/1471-2105-9-S2-S11.

11.

Generating protein interaction maps from incomplete data: application to fold assignment.

Lappe M, Park J, Niggemann O, Holm L.

Bioinformatics. 2001;17 Suppl 1:S149-56.

PMID:
11473004
12.

SCOWLP: a web-based database for detailed characterization and visualization of protein interfaces.

Teyra J, Doms A, Schroeder M, Pisabarro MT.

BMC Bioinformatics. 2006 Mar 2;7:104.

13.

HomPPI: a class of sequence homology based protein-protein interface prediction methods.

Xue LC, Dobbs D, Honavar V.

BMC Bioinformatics. 2011 Jun 17;12:244. doi: 10.1186/1471-2105-12-244.

14.

Detecting remotely related proteins by their interactions and sequence similarity.

Espadaler J, Aragüés R, Eswar N, Marti-Renom MA, Querol E, Avilés FX, Sali A, Oliva B.

Proc Natl Acad Sci U S A. 2005 May 17;102(20):7151-6. Epub 2005 May 9. Erratum in: Proc Natl Acad Sci U S A. 2005 Jun 28;102(26):9429.

15.

3D-interologs: an evolution database of physical protein- protein interactions across multiple genomes.

Lo YS, Chen YC, Yang JM.

BMC Genomics. 2010 Dec 1;11 Suppl 3:S7. doi: 10.1186/1471-2164-11-S3-S7.

16.

IIIDB: a database for isoform-isoform interactions and isoform network modules.

Tseng YT, Li W, Chen CH, Zhang S, Chen JJ, Zhou X, Liu CC.

BMC Genomics. 2015;16 Suppl 2:S10. doi: 10.1186/1471-2164-16-S2-S10. Epub 2015 Jan 21.

17.

SCOWLP update: 3D classification of protein-protein, -peptide, -saccharide and -nucleic acid interactions, and structure-based binding inferences across folds.

Teyra J, Samsonov SA, Schreiber S, Pisabarro MT.

BMC Bioinformatics. 2011 Oct 13;12:398. doi: 10.1186/1471-2105-12-398.

18.

Domains mediate protein-protein interactions and nucleate protein assemblies.

Costa S, Cesareni G.

Handb Exp Pharmacol. 2008;(186):383-405. doi: 10.1007/978-3-540-72843-6_16. Review.

PMID:
18491061
19.

Using neighborhood cohesiveness to infer interactions between protein domains.

Segura J, Sorzano CO, Cuenca-Alba J, Aloy P, Carazo JM.

Bioinformatics. 2015 Aug 1;31(15):2545-52. doi: 10.1093/bioinformatics/btv188. Epub 2015 Apr 2.

PMID:
25838464
20.

UniHI 4: new tools for query, analysis and visualization of the human protein-protein interactome.

Chaurasia G, Malhotra S, Russ J, Schnoegl S, Hänig C, Wanker EE, Futschik ME.

Nucleic Acids Res. 2009 Jan;37(Database issue):D657-60. doi: 10.1093/nar/gkn841. Epub 2008 Nov 4.

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