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Items: 1 to 20 of 432

1.

Computational discovery of gene modules and regulatory networks.

Bar-Joseph Z, Gerber GK, Lee TI, Rinaldi NJ, Yoo JY, Robert F, Gordon DB, Fraenkel E, Jaakkola TS, Young RA, Gifford DK.

Nat Biotechnol. 2003 Nov;21(11):1337-42. Epub 2003 Oct 12.

2.

Learning module networks from genome-wide location and expression data.

Xu X, Wang L, Ding D.

FEBS Lett. 2004 Dec 17;578(3):297-304.

3.

Reconstructing genetic networks in yeast.

Zhang Z, Gerstein M.

Nat Biotechnol. 2003 Nov;21(11):1295-7. No abstract available.

PMID:
14595359
4.

Transcriptional regulatory networks in Saccharomyces cerevisiae.

Lee TI, Rinaldi NJ, Robert F, Odom DT, Bar-Joseph Z, Gerber GK, Hannett NM, Harbison CT, Thompson CM, Simon I, Zeitlinger J, Jennings EG, Murray HL, Gordon DB, Ren B, Wyrick JJ, Tagne JB, Volkert TL, Fraenkel E, Gifford DK, Young RA.

Science. 2002 Oct 25;298(5594):799-804.

5.

Quantitative characterization of the transcriptional regulatory network in the yeast cell cycle.

Chen HC, Lee HC, Lin TY, Li WH, Chen BS.

Bioinformatics. 2004 Aug 12;20(12):1914-27. Epub 2004 Mar 25.

PMID:
15044243
6.

Transcriptional networks: reverse-engineering gene regulation on a global scale.

Chua G, Robinson MD, Morris Q, Hughes TR.

Curr Opin Microbiol. 2004 Dec;7(6):638-46. Review.

PMID:
15556037
7.

Computational discovery of transcriptional regulatory rules.

Pham TH, Clemente JC, Satou K, Ho TB.

Bioinformatics. 2005 Sep 1;21 Suppl 2:ii101-7.

PMID:
16204087
8.

Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data.

Segal E, Shapira M, Regev A, Pe'er D, Botstein D, Koller D, Friedman N.

Nat Genet. 2003 Jun;34(2):166-76.

PMID:
12740579
9.

Defining transcription modules using large-scale gene expression data.

Ihmels J, Bergmann S, Barkai N.

Bioinformatics. 2004 Sep 1;20(13):1993-2003. Epub 2004 Mar 25.

PMID:
15044247
10.

Statistical methods in integrative analysis for gene regulatory modules.

Zeng L, Wu J, Xie J.

Stat Appl Genet Mol Biol. 2008;7(1):Article 28. doi: 10.2202/1544-6115.1369. Epub 2008 Oct 10.

PMID:
18976224
11.
12.

Deciphering gene expression regulatory networks.

Wyrick JJ, Young RA.

Curr Opin Genet Dev. 2002 Apr;12(2):130-6. Review.

PMID:
11893484
13.

Statistical methods to infer cooperative binding among transcription factors in Saccharomyces cerevisiae.

Datta D, Zhao H.

Bioinformatics. 2008 Feb 15;24(4):545-52. Epub 2007 Nov 7.

PMID:
17989095
14.

Computational identification of combinatorial regulation and transcription factor binding sites.

Ryu T, Kim Y, Kim DW, Lee D.

Biotechnol Bioeng. 2007 Aug 15;97(6):1594-602.

PMID:
17252601
15.

Discovering regulatory binding-site modules using rule-based learning.

Hvidsten TR, WilczyƄski B, Kryshtafovych A, Tiuryn J, Komorowski J, Fidelis K.

Genome Res. 2005 Jun;15(6):856-66.

16.

Revealing modular organization in the yeast transcriptional network.

Ihmels J, Friedlander G, Bergmann S, Sarig O, Ziv Y, Barkai N.

Nat Genet. 2002 Aug;31(4):370-7. Epub 2002 Jul 22.

PMID:
12134151
17.

A network of transcriptionally coordinated functional modules in Saccharomyces cerevisiae.

Petti AA, Church GM.

Genome Res. 2005 Sep;15(9):1298-306. Epub 2005 Aug 18.

18.

Genomic analysis of regulatory network dynamics reveals large topological changes.

Luscombe NM, Babu MM, Yu H, Snyder M, Teichmann SA, Gerstein M.

Nature. 2004 Sep 16;431(7006):308-12.

19.

Genome-wide analysis of the cis-regulatory modules of divergent gene pairs in yeast.

Su CH, Shih CH, Chang TH, Tsai HK.

Genomics. 2010 Dec;96(6):352-61. doi: 10.1016/j.ygeno.2010.08.008. Epub 2010 Sep 6.

20.

A Boolean algorithm for reconstructing the structure of regulatory networks.

Mehra S, Hu WS, Karypis G.

Metab Eng. 2004 Oct;6(4):326-39.

PMID:
15491862

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