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Items 1 - 20 of 101
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1:

Predicting gene function in a hierarchical context with an ensemble of classifiers.

Guan Y, Myers CL, Hess DC, Barutcuoglu Z, Caudy AA, Troyanskaya OG.

Genome Biol. 2008;9 Suppl 1:S3. Epub 2008 Jun 27.

PMID: 18613947 [PubMed - indexed for MEDLINE]

2:

Hierarchical multi-label prediction of gene function.

Barutcuoglu Z, Schapire RE, Troyanskaya OG.

Bioinformatics. 2006 Apr 1;22(7):830-6. Epub 2006 Jan 12.

PMID: 16410319 [PubMed - indexed for MEDLINE]

3:

A critical assessment of Mus musculus gene function prediction using integrated genomic evidence.

Peña-Castillo L, Tasan M, Myers CL, Lee H, Joshi T, Zhang C, Guan Y, Leone M, Pagnani A, Kim WK, Krumpelman C, Tian W, Obozinski G, Qi Y, Mostafavi S, Lin GN, Berriz GF, Gibbons FD, Lanckriet G, Qiu J, Grant C, Barutcuoglu Z, Hill DP, Warde-Farley D, Grouios C, Ray D, Blake JA, Deng M, Jordan MI, Noble WS, Morris Q, Klein-Seetharaman J, Bar-Joseph Z, Chen T, Sun F, Troyanskaya OG, Marcotte EM, Xu D, Hughes TR, Roth FP.

Genome Biol. 2008;9 Suppl 1:S2. Epub 2008 Jun 27.

PMID: 18613946 [PubMed - indexed for MEDLINE]

4:

Inferring mouse gene functions from genomic-scale data using a combined functional network/classification strategy.

Kim WK, Krumpelman C, Marcotte EM.

Genome Biol. 2008;9 Suppl 1:S5. Epub 2008 Jun 27.

PMID: 18613949 [PubMed - indexed for MEDLINE]

5:

Combining guilt-by-association and guilt-by-profiling to predict Saccharomyces cerevisiae gene function.

Tian W, Zhang LV, Taşan M, Gibbons FD, King OD, Park J, Wunderlich Z, Cherry JM, Roth FP.

Genome Biol. 2008;9 Suppl 1:S7. Epub 2008 Jun 27.

PMID: 18613951 [PubMed - indexed for MEDLINE]

6:

A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae).

Troyanskaya OG, Dolinski K, Owen AB, Altman RB, Botstein D.

Proc Natl Acad Sci U S A. 2003 Jul 8;100(14):8348-53. Epub 2003 Jun 25.

PMID: 12826619 [PubMed - indexed for MEDLINE]

7:

Prediction of protein subcellular localization.

Yu CS, Chen YC, Lu CH, Hwang JK.

Proteins. 2006 Aug 15;64(3):643-51.

PMID: 16752418 [PubMed - indexed for MEDLINE]

8:

A scalable method for integration and functional analysis of multiple microarray datasets.

Huttenhower C, Hibbs M, Myers C, Troyanskaya OG.

Bioinformatics. 2006 Dec 1;22(23):2890-7. Epub 2006 Sep 27.

PMID: 17005538 [PubMed - indexed for MEDLINE]

9:

GeneMANIA: a real-time multiple association network integration algorithm for predicting gene function.

Mostafavi S, Ray D, Warde-Farley D, Grouios C, Morris Q.

Genome Biol. 2008;9 Suppl 1:S4. Epub 2008 Jun 27.

PMID: 18613948 [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]

11:

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]

12:

Kernel-imbedded Gaussian processes for disease classification using microarray gene expression data.

Zhao X, Cheung LW.

BMC Bioinformatics. 2007 Feb 28;8:67.

PMID: 17328811 [PubMed - indexed for MEDLINE]

13:

Consistent probabilistic outputs for protein function prediction.

Obozinski G, Lanckriet G, Grant C, Jordan MI, Noble WS.

Genome Biol. 2008;9 Suppl 1:S6. Epub 2008 Jun 27.

PMID: 18613950 [PubMed - indexed for MEDLINE]

14:

A classification-based framework for predicting and analyzing gene regulatory response.

Kundaje A, Middendorf M, Shah M, Wiggins CH, Freund Y, Leslie C.

BMC Bioinformatics. 2006 Mar 20;7 Suppl 1:S5.

PMID: 16723008 [PubMed - indexed for MEDLINE]

15:

Using protein-protein interactions for refining gene networks estimated from microarray data by Bayesian networks.

Nariai N, Kim S, Imoto S, Miyano S.

Pac Symp Biocomput. 2004:336-47.

PMID: 14992515 [PubMed - indexed for MEDLINE]

16:

Prediction of mitochondrial proteins using support vector machine and hidden Markov model.

Kumar M, Verma R, Raghava GP.

J Biol Chem. 2006 Mar 3;281(9):5357-63. Epub 2005 Dec 8.

PMID: 16339140 [PubMed - indexed for MEDLINE]

17:

Genome-scale gene function prediction using multiple sources of high-throughput data in yeast Saccharomyces cerevisiae.

Joshi T, Chen Y, Becker JM, Alexandrov N, Xu D.

OMICS. 2004 Winter;8(4):322-33.

PMID: 15703479 [PubMed - indexed for MEDLINE]

18:

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]

19:

Global protein function annotation through mining genome-scale data in yeast Saccharomyces cerevisiae.

Chen Y, Xu D.

Nucleic Acids Res. 2004 Dec 7;32(21):6414-24. Print 2004.

PMID: 15585665 [PubMed - indexed for MEDLINE]

20:

Assessing systems properties of yeast mitochondria through an interaction map of the organelle.

Perocchi F, Jensen LJ, Gagneur J, Ahting U, von Mering C, Bork P, Prokisch H, Steinmetz LM.

PLoS Genet. 2006 Oct 20;2(10):e170.

PMID: 17054397 [PubMed - indexed for MEDLINE]

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