PubMed

A new computational approach to analyze human protein complexes and predict novel protein interactions.

Zanivan S, Cascone I, Peyron C, Molineris I, Marchio S, Caselle M, Bussolino F.

Genome Biol. 2007;8(12):R256.PMID: 18053208 [PubMed - indexed for MEDLINE]Related articlesFree article

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]Related articlesFree article

Interspecies data mining to predict novel ING-protein interactions in human.

Gordon PM, Soliman MA, Bose P, Trinh Q, Sensen CW, Riabowol K.

BMC Genomics. 2008 Sep 18;9:426.PMID: 18801192 [PubMed - indexed for MEDLINE]Related articlesFree article

Assessing reliability of protein-protein interactions by integrative analysis of data in model organisms.

Lin X, Liu M, Chen XW.

BMC Bioinformatics. 2009 Apr 29;10 Suppl 4:S5.PMID: 19426453 [PubMed - indexed for MEDLINE]Related articlesFree article

Docking of protein molecular surfaces with evolutionary trace analysis.

Kanamori E, Murakami Y, Tsuchiya Y, Standley DM, Nakamura H, Kinoshita K.

Proteins. 2007 Dec 1;69(4):832-8.PMID: 17803239 [PubMed - indexed for MEDLINE]Related articles

Computational analysis and modeling of genome-scale avidity distribution of transcription factor binding sites in chip-pet experiments.

Kuznetsov VA, Orlov YL, Wei CL, Ruan Y.

Genome Inform. 2007;19:83-94.PMID: 18546507 [PubMed - indexed for MEDLINE]Related articlesFree article

The human protein coevolution network.

Tillier ER, Charlebois RL.

Genome Res. 2009 Oct;19(10):1861-71. Epub 2009 Aug 20.PMID: 19696150 [PubMed - indexed for MEDLINE]Related articles

A copula method for modeling directional dependence of genes.

Kim JM, Jung YS, Sungur EA, Han KH, Park C, Sohn I.

BMC Bioinformatics. 2008 May 1;9:225.PMID: 18447957 [PubMed - indexed for MEDLINE]Related articlesFree article

A conservative parametric approach to motif significance analysis.

Keich U, Ng P.

Genome Inform. 2007;19:61-72.PMID: 18546505 [PubMed - indexed for MEDLINE]Related articlesFree article

PDA: an automatic and comprehensive analysis program for protein-DNA complex structures.

Kim R, Guo JT.

BMC Genomics. 2009 Jul 7;10 Suppl 1:S13.PMID: 19594872 [PubMed - indexed for MEDLINE]Related articlesFree article

Seeing the forest for the trees: using the Gene Ontology to restructure hierarchical clustering.

Dotan-Cohen D, Kasif S, Melkman AA.

Bioinformatics. 2009 Jul 15;25(14):1789-95. Epub 2009 Jun 3.PMID: 19497934 [PubMed - indexed for MEDLINE]Related articlesFree article

ProLoc-GO: utilizing informative Gene Ontology terms for sequence-based prediction of protein subcellular localization.

Huang WL, Tung CW, Ho SW, Hwang SF, Ho SY.

BMC Bioinformatics. 2008 Feb 1;9:80.PMID: 18241343 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of semaphorin 5A interacting protein by applying apriori knowledge and peptide complementarity related to protein evolution and structure.

Sadanandam A, Varney ML, Singh RK.

Genomics Proteomics Bioinformatics. 2008 Dec;6(3-4):163-74.PMID: 19329067 [PubMed - indexed for MEDLINE]Related articles

Computational prediction of human proteins that can be secreted into the bloodstream.

Cui J, Liu Q, Puett D, Xu Y.

Bioinformatics. 2008 Oct 15;24(20):2370-5. Epub 2008 Aug 12.PMID: 18697770 [PubMed - indexed for MEDLINE]Related articlesFree article

Analysis of the human kinome using methods including fold recognition reveals two novel kinases.

Briedis KM, Starr A, Bourne PE.

PLoS One. 2008 Feb 13;3(2):e1597.PMID: 18270584 [PubMed - indexed for MEDLINE]Related articlesFree article

A Web-based and Grid-enabled dChip version for the analysis of large sets of gene expression data.

Corradi L, Fato M, Porro I, Scaglione S, Torterolo L.

BMC Bioinformatics. 2008 Nov 13;9:480.PMID: 19014540 [PubMed - indexed for MEDLINE]Related articlesFree article

Beyond tissueInfo: functional prediction using tissue expression profile similarity searches.

Aguilar D, Skrabanek L, Gross SS, Oliva B, Campagne F.

Nucleic Acids Res. 2008 Jun;36(11):3728-37. Epub 2008 May 15.PMID: 18483083 [PubMed - indexed for MEDLINE]Related articlesFree article

Network-based prediction of human tissue-specific metabolism.

Shlomi T, Cabili MN, Herrgård MJ, Palsson BØ, Ruppin E.

Nat Biotechnol. 2008 Sep;26(9):1003-10.PMID: 18711341 [PubMed - indexed for MEDLINE]Related articles

The condition-dependent transcriptional network in Escherichia coli.

Lemmens K, De Bie T, Dhollander T, Monsieurs P, De Moor B, Collado-Vides J, Engelen K, Marchal K.

Ann N Y Acad Sci. 2009 Mar;1158:29-35.PMID: 19348629 [PubMed - indexed for MEDLINE]Related articles

Predicting gene ontology functions from protein's regional surface structures.

Liu ZP, Wu LY, Wang Y, Chen L, Zhang XS.

BMC Bioinformatics. 2007 Dec 11;8:475.PMID: 18070366 [PubMed - indexed for MEDLINE]Related articlesFree article