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Results: 1 to 20 of 73

1.

Global landscape of protein complexes in the yeast Saccharomyces cerevisiae.

Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP, Punna T, Peregrín-Alvarez JM, Shales M, Zhang X, Davey M, Robinson MD, Paccanaro A, Bray JE, Sheung A, Beattie B, Richards DP, Canadien V, Lalev A, Mena F, Wong P, Starostine A, Canete MM, Vlasblom J, Wu S, Orsi C, Collins SR, Chandran S, Haw R, Rilstone JJ, Gandi K, Thompson NJ, Musso G, St Onge P, Ghanny S, Lam MH, Butland G, Altaf-Ul AM, Kanaya S, Shilatifard A, O'Shea E, Weissman JS, Ingles CJ, Hughes TR, Parkinson J, Gerstein M, Wodak SJ, Emili A, Greenblatt JF.

Nature. 2006 Mar 30;440(7084):637-43. Epub 2006 Mar 22.

PMID:
16554755
[PubMed - indexed for MEDLINE]
2.

Structural systems biology: modelling protein interactions.

Aloy P, Russell RB.

Nat Rev Mol Cell Biol. 2006 Mar;7(3):188-97. Review.

PMID:
16496021
[PubMed - indexed for MEDLINE]
3.

Locally defined protein phylogenetic profiles reveal previously missed protein interactions and functional relationships.

Kim Y, Subramaniam S.

Proteins. 2006 Mar 1;62(4):1115-24.

PMID:
16385560
[PubMed - indexed for MEDLINE]
4.

Finding biologically relevant protein domain interactions: conserved binding mode analysis.

Shoemaker BA, Panchenko AR, Bryant SH.

Protein Sci. 2006 Feb;15(2):352-61. Epub 2005 Dec 29.

PMID:
16385001
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Systematic discovery of new recognition peptides mediating protein interaction networks.

Neduva V, Linding R, Su-Angrand I, Stark A, de Masi F, Gibson TJ, Lewis J, Serrano L, Russell RB.

PLoS Biol. 2005 Dec;3(12):e405. Epub 2005 Nov 15.

PMID:
16279839
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Survey of the geometric association of domain-domain interfaces.

Kim WK, Ison JC.

Proteins. 2005 Dec 1;61(4):1075-88.

PMID:
16247798
[PubMed - indexed for MEDLINE]
7.

Prediction of protein-protein interactions using random decision forest framework.

Chen XW, Liu M.

Bioinformatics. 2005 Dec 15;21(24):4394-400. Epub 2005 Oct 18.

PMID:
16234318
[PubMed - indexed for MEDLINE]
Free Article
8.

Inferring protein domain interactions from databases of interacting proteins.

Riley R, Lee C, Sabatti C, Eisenberg D.

Genome Biol. 2005;6(10):R89. Epub 2005 Sep 19.

PMID:
16207360
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Decomposing protein networks into domain-domain interactions.

Albrecht M, Huthmacher C, Tosatto SC, Lengauer T.

Bioinformatics. 2005 Sep 1;21 Suppl 2:ii220-1.

PMID:
16204107
[PubMed - indexed for MEDLINE]
Free Article
10.

Assessing protein co-evolution in the context of the tree of life assists in the prediction of the interactome.

Pazos F, Ranea JA, Juan D, Sternberg MJ.

J Mol Biol. 2005 Sep 30;352(4):1002-15.

PMID:
16139301
[PubMed - indexed for MEDLINE]
11.

A protein domain interaction interface database: InterPare.

Gong S, Park C, Choi H, Ko J, Jang I, Lee J, Bolser DM, Oh D, Kim DS, Bhak J.

BMC Bioinformatics. 2005 Aug 25;6:207.

PMID:
16122378
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships.

Sato T, Yamanishi Y, Kanehisa M, Toh H.

Bioinformatics. 2005 Sep 1;21(17):3482-9. Epub 2005 Jun 30.

PMID:
15994190
[PubMed - indexed for MEDLINE]
Free Article
13.

Predicting protein-protein interaction by searching evolutionary tree automorphism space.

Jothi R, Kann MG, Przytycka TM.

Bioinformatics. 2005 Jun;21 Suppl 1:i241-50.

PMID:
15961463
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Computational verification of protein-protein interactions by orthologous co-expression.

Tirosh I, Barkai N.

BMC Bioinformatics. 2005 Mar 2;6:40.

PMID:
15740634
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Interaction network containing conserved and essential protein complexes in Escherichia coli.

Butland G, Peregrín-Alvarez JM, Li J, Yang W, Yang X, Canadien V, Starostine A, Richards D, Beattie B, Krogan N, Davey M, Parkinson J, Greenblatt J, Emili A.

Nature. 2005 Feb 3;433(7025):531-7.

PMID:
15690043
[PubMed - indexed for MEDLINE]
16.

Conserved patterns of protein interaction in multiple species.

Sharan R, Suthram S, Kelley RM, Kuhn T, McCuine S, Uetz P, Sittler T, Karp RM, Ideker T.

Proc Natl Acad Sci U S A. 2005 Feb 8;102(6):1974-9. Epub 2005 Feb 1.

PMID:
15687504
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Conservation of orientation and sequence in protein domain--domain interactions.

Littler SJ, Hubbard SJ.

J Mol Biol. 2005 Feb 4;345(5):1265-79. Epub 2004 Dec 16.

PMID:
15644220
[PubMed - indexed for MEDLINE]
18.

A domain interaction map based on phylogenetic profiling.

Pagel P, Wong P, Frishman D.

J Mol Biol. 2004 Dec 10;344(5):1331-46.

PMID:
15561146
[PubMed - indexed for MEDLINE]
19.

Statistical analysis of domains in interacting protein pairs.

Nye TM, Berzuini C, Gilks WR, Babu MM, Teichmann SA.

Bioinformatics. 2005 Apr 1;21(7):993-1001. Epub 2004 Oct 27.

PMID:
15509600
[PubMed - indexed for MEDLINE]
Free Article
20.

iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions.

Finn RD, Marshall M, Bateman A.

Bioinformatics. 2005 Feb 1;21(3):410-2. Epub 2004 Sep 7.

PMID:
15353450
[PubMed - indexed for MEDLINE]
Free Article

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