PubMed

Transcriptional features of genomic regulatory blocks.

Akalin A, Fredman D, Arner E, Dong X, Bryne JC, Suzuki H, Daub CO, Hayashizaki Y, Lenhard B.

Genome Biol. 2009;10(4):R38. Epub 2009 Apr 19.PMID: 19374772 [PubMed - indexed for MEDLINE]Related articlesFree article

Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates.

Kikuta H, Laplante M, Navratilova P, Komisarczuk AZ, Engström PG, Fredman D, Akalin A, Caccamo M, Sealy I, Howe K, Ghislain J, Pezeron G, Mourrain P, Ellingsen S, Oates AC, Thisse C, Thisse B, Foucher I, Adolf B, Geling A, Lenhard B, Becker TS.

Genome Res. 2007 May;17(5):545-55. Epub 2007 Mar 26.PMID: 17387144 [PubMed - indexed for MEDLINE]Related articlesFree article

The regulatory code for transcriptional response diversity and its relation to genome structural properties in A. thaliana.

Walther D, Brunnemann R, Selbig J.

PLoS Genet. 2007 Feb 9;3(2):e11. Epub 2006 Dec 6.PMID: 17291162 [PubMed - indexed for MEDLINE]Related articlesFree article

Motif composition, conservation and condition-specificity of single and alternative transcription start sites in the Drosophila genome.

Rach EA, Yuan HY, Majoros WH, Tomancak P, Ohler U.

Genome Biol. 2009;10(7):R73. Epub 2009 Jul 9.PMID: 19589141 [PubMed - indexed for MEDLINE]Related articlesFree article

Genomic regulatory blocks underlie extensive microsynteny conservation in insects.

Engström PG, Ho Sui SJ, Drivenes O, Becker TS, Lenhard B.

Genome Res. 2007 Dec;17(12):1898-908. Epub 2007 Nov 7.PMID: 17989259 [PubMed - indexed for MEDLINE]Related articlesFree article

Genome-wide investigation of in vivo EGR-1 binding sites in monocytic differentiation.

Kubosaki A, Tomaru Y, Tagami M, Arner E, Miura H, Suzuki T, Suzuki M, Suzuki H, Hayashizaki Y.

Genome Biol. 2009;10(4):R41. Epub 2009 Apr 19.PMID: 19374776 [PubMed - indexed for MEDLINE]Related articlesFree article

Definition, conservation and epigenetics of housekeeping and tissue-enriched genes.

She X, Rohl CA, Castle JC, Kulkarni AV, Johnson JM, Chen R.

BMC Genomics. 2009 Jun 17;10:269.PMID: 19534766 [PubMed - indexed for MEDLINE]Related articlesFree article

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 [PubMed - indexed for MEDLINE]Related articlesFree article

Whole-genome maps of USF1 and USF2 binding and histone H3 acetylation reveal new aspects of promoter structure and candidate genes for common human disorders.

Rada-Iglesias A, Ameur A, Kapranov P, Enroth S, Komorowski J, Gingeras TR, Wadelius C.

Genome Res. 2008 Mar;18(3):380-92. Epub 2008 Jan 29.PMID: 18230803 [PubMed - indexed for MEDLINE]Related articlesFree article

Intergenic, gene terminal, and intragenic CpG islands in the human genome.

Medvedeva YA, Fridman MV, Oparina NJ, Malko DB, Ermakova EO, Kulakovskiy IV, Heinzel A, Makeev VJ.

BMC Genomics. 2010 Jan 19;11:48.PMID: 20085634 [PubMed - indexed for MEDLINE]Related articlesFree article

Clusters of regulatory signals for RNA polymerase II transcription associated with Alu family repeats and CpG islands in human promoters.

Oei SL, Babich VS, Kazakov VI, Usmanova NM, Kropotov AV, Tomilin NV.

Genomics. 2004 May;83(5):873-82.PMID: 15081116 [PubMed - indexed for MEDLINE]Related articles

V1R promoters are well conserved and exhibit common putative regulatory motifs.

Stewart R, Lane RP.

BMC Genomics. 2007 Jul 25;8:253.PMID: 17651493 [PubMed - indexed for MEDLINE]Related articlesFree article

Composition-sensitive analysis of the human genome for regulatory signals.

Kel-Margoulis OV, Tchekmenev D, Kel AE, Goessling E, Hornischer K, Lewicki-Potapov B, Wingender E.

In Silico Biol. 2003;3(1-2):145-71. Epub 2003 Jun 27.PMID: 12954097 [PubMed - indexed for MEDLINE]Related articlesFree article

A distinct epigenetic signature at targets of a leukemia protein.

Rossetti S, Hoogeveen AT, Liang P, Stanciu C, van der Spek P, Sacchi N.

BMC Genomics. 2007 Feb 1;8:38.PMID: 17266773 [PubMed - indexed for MEDLINE]Related articlesFree article

Alternative usages of multiple promoters of the acetyl-CoA carboxylase beta gene are related to differential transcriptional regulation in human and rodent tissues.

Oh SY, Lee MY, Kim JM, Yoon S, Shin S, Park YN, Ahn YH, Kim KS.

J Biol Chem. 2005 Feb 18;280(7):5909-16. Epub 2004 Dec 6.PMID: 15590647 [PubMed - indexed for MEDLINE]Related articlesFree article

Cluster analysis and promoter modelling as bioinformatics tools for the identification of target genes from expression array data.

Werner T.

Pharmacogenomics. 2001 Feb;2(1):25-36. Review.PMID: 11258194 [PubMed - indexed for MEDLINE]Related articles

Genome-wide analysis of factors regulating gene expression in liver.

Teufel A, Weinmann A, Krupp M, Budinger M, Galle PR.

Gene. 2007 Mar 15;389(2):114-21. Epub 2006 Nov 7.PMID: 17174484 [PubMed - indexed for MEDLINE]Related articles

Two promoters control the mouse Nmp4/CIZ transcription factor gene.

Alvarez M, Shah R, Rhodes SJ, Bidwell JP.

Gene. 2005 Feb 28;347(1):43-54. Epub 2005 Jan 21.PMID: 15716059 [PubMed - indexed for MEDLINE]Related articles

Identification of promoter regions in the human genome by using a retroviral plasmid library-based functional reporter gene assay.

Khambata-Ford S, Liu Y, Gleason C, Dickson M, Altman RB, Batzoglou S, Myers RM.

Genome Res. 2003 Jul;13(7):1765-74. Epub 2003 Jun 12.PMID: 12805274 [PubMed - indexed for MEDLINE]Related articlesFree article

Genes involved in complex adaptive processes tend to have highly conserved upstream regions in mammalian genomes.

Lee S, Kohane I, Kasif S.

BMC Genomics. 2005 Nov 27;6:168.PMID: 16309559 [PubMed - indexed for MEDLINE]Related articlesFree article