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Motifs and cis-regulatory modules mediating the expression of genes co-expressed in presynaptic neurons.

Liu R, Hannenhalli S, Bucan M.

Genome Biol. 2009;10(7):R72. Epub 2009 Jul 1.PMID: 19570198 [PubMed - indexed for MEDLINE]Related articlesFree article

Rab3A is required for brain-derived neurotrophic factor-induced synaptic plasticity: transcriptional analysis at the population and single-cell levels.

Thakker-Varia S, Alder J, Crozier RA, Plummer MR, Black IB.

J Neurosci. 2001 Sep 1;21(17):6782-90.PMID: 11517266 [PubMed - indexed for MEDLINE]Related articlesFree article

Characterization of a nervous system-specific promoter for growth-associated protein 43 gene in Medaka (Oryzias latipes).

Fujimori KE, Kawasaki T, Deguchi T, Yuba S.

Brain Res. 2008 Dec 15;1245:1-15. Epub 2008 Oct 7.PMID: 18951884 [PubMed - indexed for MEDLINE]Related articles

Identification of transcription factor binding sites upstream of human genes regulated by the phosphatidylinositol 3-kinase and MEK/ERK signaling pathways.

Tullai JW, Schaffer ME, Mullenbrock S, Kasif S, Cooper GM.

J Biol Chem. 2004 May 7;279(19):20167-77. Epub 2004 Feb 9.PMID: 14769801 [PubMed - indexed for MEDLINE]Related articlesFree article

Predictive screening for regulators of conserved functional gene modules (gene batteries) in mammals.

Nelander S, Larsson E, Kristiansson E, Månsson R, Nerman O, Sigvardsson M, Mostad P, Lindahl P.

BMC Genomics. 2005 May 9;6(1):68.PMID: 15882449 [PubMed - indexed for MEDLINE]Related articlesFree article

Patterns of sequence conservation in presynaptic neural genes.

Hadley D, Murphy T, Valladares O, Hannenhalli S, Ungar L, Kim J, Bućan M.

Genome Biol. 2006;7(11):R105.PMID: 17096848 [PubMed - indexed for MEDLINE]Related articlesFree article

CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments.

Sharan R, Ovcharenko I, Ben-Hur A, Karp RM.

Bioinformatics. 2003;19 Suppl 1:i283-91.PMID: 12855471 [PubMed - indexed for MEDLINE]Related articlesFree article

CompMoby: comparative MobyDick for detection of cis-regulatory motifs.

Chaivorapol C, Melton C, Wei G, Yeh RF, Ramalho-Santos M, Blelloch R, Li H.

BMC Bioinformatics. 2008 Oct 27;9:455.PMID: 18950538 [PubMed - indexed for MEDLINE]Related articlesFree article

The upstream region of the Rpe65 gene confers retinal pigment epithelium-specific expression in vivo and in vitro and contains critical octamer and E-box binding sites.

Boulanger A, Liu S, Henningsgaard AA, Yu S, Redmond TM.

J Biol Chem. 2000 Oct 6;275(40):31274-82.PMID: 10896939 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparison of promoters for the murine and human P-selectin genes suggests species-specific and conserved mechanisms for transcriptional regulation in endothelial cells.

Pan J, Xia L, McEver RP.

J Biol Chem. 1998 Apr 17;273(16):10058-67.PMID: 9545353 [PubMed - indexed for MEDLINE]Related articlesFree article

Expression of zebrafish pax6b in pancreas is regulated by two enhancers containing highly conserved cis-elements bound by PDX1, PBX and PREP factors.

Delporte FM, Pasque V, Devos N, Manfroid I, Voz ML, Motte P, Biemar F, Martial JA, Peers B.

BMC Dev Biol. 2008 May 16;8:53.PMID: 18485195 [PubMed - indexed for MEDLINE]Related articlesFree article

Identifying pattern-defined regulatory islands in mammalian genomes.

Cheung TH, Barthel KK, Kwan YL, Liu X.

Proc Natl Acad Sci U S A. 2007 Jun 12;104(24):10116-21. Epub 2007 May 29.PMID: 17535887 [PubMed - indexed for MEDLINE]Related articlesFree article

Critical role of the transcriptional repressor neuron-restrictive silencer factor in the specific control of connexin36 in insulin-producing cell lines.

Martin D, Tawadros T, Meylan L, Abderrahmani A, Condorelli DF, Waeber G, Haefliger JA.

J Biol Chem. 2003 Dec 26;278(52):53082-9. Epub 2003 Oct 16.PMID: 14565956 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of a novel cis-regulatory element involved in the heat shock response in Caenorhabditis elegans using microarray gene expression and computational methods.

GuhaThakurta D, Palomar L, Stormo GD, Tedesco P, Johnson TE, Walker DW, Lithgow G, Kim S, Link CD.

Genome Res. 2002 May;12(5):701-12. Erratum in: Genome Res 2002 Aug;12(8):1301. PMID: 11997337 [PubMed - indexed for MEDLINE]Related articlesFree article

Quail myoD is regulated by a complex array of cis-acting control sequences.

Pinney DF, de la Brousse FC, Faerman A, Shani M, Maruyama K, Emerson CP Jr.

Dev Biol. 1995 Jul;170(1):21-38.PMID: 7601311 [PubMed - indexed for MEDLINE]Related articles

A role for Octamer binding protein motifs in the regulation of the proximal preprotachykinin-A promoter.

Fiskerstrand CE, Newey P, McGregor GP, Gerrard L, Millan F, Quinn JP.

Neuropeptides. 2000 Dec;34(6):348-54.PMID: 11162291 [PubMed - indexed for MEDLINE]Related articles

Expression profiling of mammalian microRNAs uncovers a subset of brain-expressed microRNAs with possible roles in murine and human neuronal differentiation.

Sempere LF, Freemantle S, Pitha-Rowe I, Moss E, Dmitrovsky E, Ambros V.

Genome Biol. 2004;5(3):R13. Epub 2004 Feb 16.PMID: 15003116 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of muscle-specific regulatory modules in Caenorhabditis elegans.

Zhao G, Schriefer LA, Stormo GD.

Genome Res. 2007 Mar;17(3):348-57. Epub 2007 Feb 6.PMID: 17284674 [PubMed - indexed for MEDLINE]Related articlesFree article

oPOSSUM: identification of over-represented transcription factor binding sites in co-expressed genes.

Ho Sui SJ, Mortimer JR, Arenillas DJ, Brumm J, Walsh CJ, Kennedy BP, Wasserman WW.

Nucleic Acids Res. 2005 Jun 2;33(10):3154-64. Print 2005.PMID: 15933209 [PubMed - indexed for MEDLINE]Related articlesFree article

Conserved and distinct roles of kreisler in regulation of the paralogous Hoxa3 and Hoxb3 genes.

Manzanares M, Cordes S, Ariza-McNaughton L, Sadl V, Maruthainar K, Barsh G, Krumlauf R.

Development. 1999 Feb;126(4):759-69.PMID: 9895323 [PubMed - indexed for MEDLINE]Related articlesFree article