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Results: 1 to 20 of 328

1.

Genetic reconstruction of a functional transcriptional regulatory network.

Hu Z, Killion PJ, Iyer VR.

Nat Genet. 2007 May;39(5):683-7. Epub 2007 Apr 8.

PMID:
17417638
[PubMed - indexed for MEDLINE]
2.

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.

PMID:
12399584
[PubMed - indexed for MEDLINE]
Free Article
3.

Transcriptional regulatory network analysis during epithelial-mesenchymal transformation of retinal pigment epithelium.

Pratt CH, Vadigepalli R, Chakravarthula P, Gonye GE, Philp NJ, Grunwald GB.

Mol Vis. 2008 Aug 4;14:1414-28.

PMID:
18682805
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Inference of combinatorial regulation in yeast transcriptional networks: a case study of sporulation.

Wang W, Cherry JM, Nochomovitz Y, Jolly E, Botstein D, Li H.

Proc Natl Acad Sci U S A. 2005 Feb 8;102(6):1998-2003. Epub 2005 Jan 31.

PMID:
15684073
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

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
[PubMed - indexed for MEDLINE]
6.

Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data.

Gao F, Foat BC, Bussemaker HJ.

BMC Bioinformatics. 2004 Mar 18;5:31.

PMID:
15113405
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Identifying promoter features of co-regulated genes with similar network motifs.

Harari O, del Val C, Romero-Zaliz R, Shin D, Huang H, Groisman EA, Zwir I.

BMC Bioinformatics. 2009 Apr 29;10 Suppl 4:S1. doi: 10.1186/1471-2105-10-S4-S1.

PMID:
19426448
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

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
[PubMed - indexed for MEDLINE]
9.

Reconstruction of Escherichia coli transcriptional regulatory networks via regulon-based associations.

Zare H, Sangurdekar D, Srivastava P, Kaveh M, Khodursky A.

BMC Syst Biol. 2009 Apr 14;3:39. doi: 10.1186/1752-0509-3-39.

PMID:
19366454
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

A statistical method for constructing transcriptional regulatory networks using gene expression and sequence data.

Xing B, van der Laan MJ.

J Comput Biol. 2005 Mar;12(2):229-46.

PMID:
15767778
[PubMed - indexed for MEDLINE]
11.

Comprehensive genetic analysis of transcription factor pathways using a dual reporter gene system in budding yeast.

Kainth P, Sassi HE, Peña-Castillo L, Chua G, Hughes TR, Andrews B.

Methods. 2009 Jul;48(3):258-64. doi: 10.1016/j.ymeth.2009.02.015. Epub 2009 Mar 6.

PMID:
19269327
[PubMed - indexed for MEDLINE]
12.

Quantifying transcriptional regulatory networks by integrating sequence features and microarray data.

Liu H.

Bioprocess Biosyst Eng. 2010 May;33(4):495-505. doi: 10.1007/s00449-009-0358-1. Epub 2009 Aug 6.

PMID:
19657679
[PubMed - indexed for MEDLINE]
13.

Global analysis of the regulatory network structure of gene expression in Saccharomyces cerevisiae.

Gunji W, Kai T, Takahashi Y, Maki Y, Kurihara W, Utsugi T, Fujimori F, Murakami Y.

DNA Res. 2004 Jun 30;11(3):163-77.

PMID:
15368892
[PubMed - indexed for MEDLINE]
Free Article
14.

Refining current knowledge on the yeast FLR1 regulatory network by combined experimental and computational approaches.

Teixeira MC, Dias PJ, Monteiro PT, Sala A, Oliveira AL, Freitas AT, Sá-Correia I.

Mol Biosyst. 2010 Dec;6(12):2471-81. doi: 10.1039/c004881j. Epub 2010 Oct 11.

PMID:
20938527
[PubMed - indexed for MEDLINE]
15.

CARRIE web service: automated transcriptional regulatory network inference and interactive analysis.

Haverty PM, Frith MC, Weng Z.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W213-6.

PMID:
15215383
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Identifying regulatory networks by combinatorial analysis of promoter elements.

Pilpel Y, Sudarsanam P, Church GM.

Nat Genet. 2001 Oct;29(2):153-9.

PMID:
11547334
[PubMed - indexed for MEDLINE]
17.

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.

PMID:
14555958
[PubMed - indexed for MEDLINE]
Free Article
18.

Topological basis of signal integration in the transcriptional-regulatory network of the yeast, Saccharomyces cerevisiae.

Farkas IJ, Wu C, Chennubhotla C, Bahar I, Oltvai ZN.

BMC Bioinformatics. 2006 Oct 28;7:478.

PMID:
17069658
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Inference of active transcriptional networks by integration of gene expression kinetics modeling and multisource data.

Vu TT, Vohradsky J.

Genomics. 2009 May;93(5):426-33. doi: 10.1016/j.ygeno.2009.01.006. Epub 2009 Feb 5.

PMID:
19442636
[PubMed - indexed for MEDLINE]
Free Article
20.

Combined analysis of expression data and transcription factor binding sites in the yeast genome.

Nagaraj VH, O'Flanagan RA, Bruning AR, Mathias JR, Vershon AK, Sengupta AM.

BMC Genomics. 2004 Aug 26;5(1):59.

PMID:
15331021
[PubMed - indexed for MEDLINE]
Free PMC Article

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