PubMed

The effects of protein interactions, gene essentiality and regulatory regions on expression variation.

Zhou L, Ma X, Sun F.

BMC Syst Biol. 2008 Jun 26;2:54.PMID: 18582382 [PubMed - indexed for MEDLINE]Related articlesFree article

Cis-regulatory variations: a study of SNPs around genes showing cis-linkage in segregating mouse populations.

GuhaThakurta D, Xie T, Anand M, Edwards SW, Li G, Wang SS, Schadt EE.

BMC Genomics. 2006 Sep 15;7:235.PMID: 16978413 [PubMed - indexed for MEDLINE]Related articlesFree article

Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle.

Wu WS, Li WH, Chen BS.

BMC Bioinformatics. 2006 Sep 29;7:421.PMID: 17010188 [PubMed - indexed for MEDLINE]Related articlesFree article

A gateway-compatible yeast one-hybrid system.

Deplancke B, Dupuy D, Vidal M, Walhout AJ.

Genome Res. 2004 Oct;14(10B):2093-101.PMID: 15489331 [PubMed - indexed for MEDLINE]Related articlesFree article

Dynamic modeling of cis-regulatory circuits and gene expression prediction via cross-gene identification.

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

BMC Bioinformatics. 2005 Oct 18;6:258.PMID: 16232312 [PubMed - indexed for MEDLINE]Related articlesFree article

Links between core promoter and basic gene features influence gene expression.

Moshonov S, Elfakess R, Golan-Mashiach M, Sinvani H, Dikstein R.

BMC Genomics. 2008 Feb 25;9:92.PMID: 18298820 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of tissue-specific cis-regulatory modules based on interactions between transcription factors.

Yu X, Lin J, Zack DJ, Qian J.

BMC Bioinformatics. 2007 Nov 9;8:437.PMID: 17996093 [PubMed - indexed for MEDLINE]Related articlesFree article

Identifying regulatory targets of cell cycle transcription factors using gene expression and ChIP-chip data.

Wu WS, Li WH, Chen BS.

BMC Bioinformatics. 2007 Jun 8;8:188.PMID: 17559637 [PubMed - indexed for MEDLINE]Related articlesFree article

Unraveling transcription regulatory networks by protein-DNA and protein-protein interaction mapping.

Walhout AJ.

Genome Res. 2006 Dec;16(12):1445-54. Epub 2006 Oct 19. Review.PMID: 17053092 [PubMed - indexed for MEDLINE]Related articlesFree article

Cis sequence effects on gene expression.

Bergen AW, Baccarelli A, McDaniel TK, Kuhn K, Pfeiffer R, Kakol J, Bender P, Jacobs K, Packer B, Chanock SJ, Yeager M.

BMC Genomics. 2007 Aug 29;8:296.PMID: 17727713 [PubMed - indexed for MEDLINE]Related articlesFree article

Selective constraints in experimentally defined primate regulatory regions.

Gaffney DJ, Blekhman R, Majewski J.

PLoS Genet. 2008 Aug 15;4(8):e1000157.PMID: 18704158 [PubMed - indexed for MEDLINE]Related articlesFree article

Genome-wide decoding of hierarchical modular structure of transcriptional regulation by cis-element and expression clustering.

Leyfer D, Weng Z.

Bioinformatics. 2005 Sep 1;21 Suppl 2:ii197-203.PMID: 16204103 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparing expression profiles of genes with similar promoter regions.

Park PJ, Butte AJ, Kohane IS.

Bioinformatics. 2002 Dec;18(12):1576-84.PMID: 12490441 [PubMed - indexed for MEDLINE]Related articlesFree article

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]Related articlesFree article

Network motif-based identification of transcription factor-target gene relationships by integrating multi-source biological data.

Zhang Y, Xuan J, de los Reyes BG, Clarke R, Ressom HW.

BMC Bioinformatics. 2008 Apr 21;9:203.PMID: 18426580 [PubMed - indexed for MEDLINE]Related articlesFree article

Genetic properties influencing the evolvability of gene expression.

Landry CR, Lemos B, Rifkin SA, Dickinson WJ, Hartl DL.

Science. 2007 Jul 6;317(5834):118-21. Epub 2007 May 24.PMID: 17525304 [PubMed - indexed for MEDLINE]Related articlesFree article

A regulatory network analysis of phenotypic plasticity in yeast.

Promislow D.

Am Nat. 2005 May;165(5):515-23. Epub 2005 Feb 18.PMID: 15795849 [PubMed - indexed for MEDLINE]Related articles

EDGEdb: a transcription factor-DNA interaction database for the analysis of C. elegans differential gene expression.

Barrasa MI, Vaglio P, Cavasino F, Jacotot L, Walhout AJ.

BMC Genomics. 2007 Jan 18;8:21.PMID: 17233892 [PubMed - indexed for MEDLINE]Related articlesFree article

A systematic approach to detecting transcription factors in response to environmental stresses.

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

BMC Bioinformatics. 2007 Dec 8;8:473.PMID: 18067669 [PubMed - indexed for MEDLINE]Related articlesFree article

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 [PubMed - indexed for MEDLINE]Related articles