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Results: 1 to 20 of 88

1.

Computational strategy for discovering druggable gene networks from genome-wide RNA expression profiles.

Imoto S, Tamada Y, Araki H, Yasuda K, Print CG, Charnock-Jones SD, Sanders D, Savoie CJ, Tashiro K, Kuhara S, Miyano S.

Pac Symp Biocomput. 2006:559-71.

PMID:
17094269
[PubMed - indexed for MEDLINE]
Free Article
2.

Use of gene networks for identifying and validating drug targets.

Imoto S, Savoie CJ, Aburatani S, Kim S, Tashiro K, Kuhara S, Miyano S.

J Bioinform Comput Biol. 2003 Oct;1(3):459-74.

PMID:
15290765
[PubMed - indexed for MEDLINE]
3.

Unraveling dynamic activities of autocrine pathways that control drug-response transcriptome networks.

Tamada Y, Araki H, Imoto S, Nagasaki M, Doi A, Nakanishi Y, Tomiyasu Y, Yasuda K, Dunmore B, Sanders D, Humphreys S, Print C, Charnock-Jones DS, Tashiro K, Kuhara S, Miyano S.

Pac Symp Biocomput. 2009:251-63.

PMID:
19209706
[PubMed - indexed for MEDLINE]
Free Article
4.

Identifying drug active pathways from gene networks estimated by gene expression data.

Tamada Y, Imoto S, Tashiro K, Kuhara S, Miyano S.

Genome Inform. 2005;16(1):182-91.

PMID:
16362921
[PubMed - indexed for MEDLINE]
5.

Analysis of PPARalpha-dependent and PPARalpha-independent transcript regulation following fenofibrate treatment of human endothelial cells.

Araki H, Tamada Y, Imoto S, Dunmore B, Sanders D, Humphrey S, Nagasaki M, Doi A, Nakanishi Y, Yasuda K, Tomiyasu Y, Tashiro K, Print C, Charnock-Jones DS, Kuhara S, Miyano S.

Angiogenesis. 2009;12(3):221-9. doi: 10.1007/s10456-009-9142-8. Epub 2009 Apr 9.

PMID:
19357976
[PubMed - indexed for MEDLINE]
6.

Estimating genome-wide gene networks using nonparametric Bayesian network models on massively parallel computers.

Tamada Y, Imoto S, Araki H, Nagasaki M, Print C, Charnock-Jones DS, Miyano S.

IEEE/ACM Trans Comput Biol Bioinform. 2011 May-Jun;8(3):683-97. doi: 10.1109/TCBB.2010.68.

PMID:
20714027
[PubMed - indexed for MEDLINE]
7.

Using Bayesian networks to analyze expression data.

Friedman N, Linial M, Nachman I, Pe'er D.

J Comput Biol. 2000;7(3-4):601-20.

PMID:
11108481
[PubMed - indexed for MEDLINE]
8.

Analysis of gene networks for drug target discovery and validation.

Imoto S, Tamada Y, Savoie CJ, Miyano S.

Methods Mol Biol. 2007;360:33-56.

PMID:
17172724
[PubMed - indexed for MEDLINE]
9.

An empirical Bayesian method for estimating biological networks from temporal microarray data.

Rau A, Jaffr├ęzic F, Foulley JL, Doerge RW.

Stat Appl Genet Mol Biol. 2010;9:Article 9. doi: 10.2202/1544-6115.1513. Epub 2010 Jan 15.

PMID:
20196759
[PubMed - indexed for MEDLINE]
10.

Inferring gene networks from time series microarray data using dynamic Bayesian networks.

Kim SY, Imoto S, Miyano S.

Brief Bioinform. 2003 Sep;4(3):228-35.

PMID:
14582517
[PubMed - indexed for MEDLINE]
Free Article
11.

Finding optimal models for small gene networks.

Ott S, Imoto S, Miyano S.

Pac Symp Biocomput. 2004:557-67.

PMID:
14992533
[PubMed - indexed for MEDLINE]
12.

Inferring gene regulatory networks from time-ordered gene expression data of Bacillus subtilis using differential equations.

de Hoon MJ, Imoto S, Kobayashi K, Ogasawara N, Miyano S.

Pac Symp Biocomput. 2003:17-28.

PMID:
12603014
[PubMed - indexed for MEDLINE]
13.

Method for inferring and extracting reliable genetic interactions from time-series profile of gene expression.

Nakatsui M, Ueda T, Maki Y, Ono I, Okamoto M.

Math Biosci. 2008 Sep;215(1):105-14. doi: 10.1016/j.mbs.2008.06.007. Epub 2008 Jun 28.

PMID:
18638491
[PubMed - indexed for MEDLINE]
14.

A Bayesian network classification methodology for gene expression data.

Helman P, Veroff R, Atlas SR, Willman C.

J Comput Biol. 2004;11(4):581-615.

PMID:
15579233
[PubMed - indexed for MEDLINE]
15.

Modeling cellular processes with variational Bayesian cooperative vector quantizer.

Lu X, Hauskrecht M, Day RS.

Pac Symp Biocomput. 2004:533-44.

PMID:
14992531
[PubMed - indexed for MEDLINE]
16.

Inference of gene regulatory networks by means of dynamic differential Bayesian networks and nonparametric regression.

Sugimoto N, Iba H.

Genome Inform. 2004;15(2):121-30.

PMID:
15706498
[PubMed - indexed for MEDLINE]
17.

Enhancing biological relevance of a weighted gene co-expression network for functional module identification.

Prom-On S, Chanthaphan A, Chan JH, Meechai A.

J Bioinform Comput Biol. 2011 Feb;9(1):111-29.

PMID:
21328709
[PubMed - indexed for MEDLINE]
18.

A sub-space greedy search method for efficient Bayesian Network inference.

Zhang Q, Cao Y, Li Y, Zhu Y, Sun SS, Guo D.

Comput Biol Med. 2011 Sep;41(9):763-70. doi: 10.1016/j.compbiomed.2011.06.012. Epub 2011 Jul 8.

PMID:
21741635
[PubMed - indexed for MEDLINE]
19.

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. doi: 10.1186/1471-2105-9-225.

PMID:
18447957
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

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]

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