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Results: 1 to 20 of 24

Cited In for PubMed (Select 11805309)


Low-affinity transcription factor binding sites shape morphogen responses and enhancer evolution.

Ramos AI, Barolo S.

Philos Trans R Soc Lond B Biol Sci. 2013 Nov 11;368(1632):20130018. doi: 10.1098/rstb.2013.0018. Print 2013 Dec 19.


PRISM offers a comprehensive genomic approach to transcription factor function prediction.

Wenger AM, Clarke SL, Guturu H, Chen J, Schaar BT, McLean CY, Bejerano G.

Genome Res. 2013 May;23(5):889-904. doi: 10.1101/gr.139071.112. Epub 2013 Feb 4.


A high resolution genome-wide scan of HNF4α recognition sites infers a regulatory gene network in colon cancer.

Weltmeier F, Borlak J.

PLoS One. 2011;6(7):e21667. doi: 10.1371/journal.pone.0021667. Epub 2011 Jul 28.


Application of Biostatistics and Bioinformatics Tools to Identify Putative Transcription Factor-Gene Regulatory Network of Ankylosing Spondylitis and Sarcoidosis.

Choi D, Sharma SM, Pasadhika S, Kang Z, Harrington CA, Smith JR, Planck SR, Rosenbaum JT.

Commun Stat Theory Methods. 2009 Jan 1;38(18):3326-3338.


DISCOVER: a feature-based discriminative method for motif search in complex genomes.

Fu W, Ray P, Xing EP.

Bioinformatics. 2009 Jun 15;25(12):i321-9. doi: 10.1093/bioinformatics/btp230.


Promoter-specific co-activation by Drosophila mastermind.

Cave JW, Caudy MA.

Biochem Biophys Res Commun. 2008 Dec 12;377(2):658-61. doi: 10.1016/j.bbrc.2008.10.035. Epub 2008 Oct 16.


Recent computational approaches to understand gene regulation: mining gene regulation in silico.

Abnizova I, Subhankulova T, Gilks W.

Curr Genomics. 2007 Apr;8(2):79-91.


DiRE: identifying distant regulatory elements of co-expressed genes.

Gotea V, Ovcharenko I.

Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W133-9. doi: 10.1093/nar/gkn300. Epub 2008 May 17.


Transcriptional networks inferred from molecular signatures of breast cancer.

Tongbai R, Idelman G, Nordgard SH, Cui W, Jacobs JL, Haggerty CM, Chanock SJ, Børresen-Dale AL, Livingston G, Shaunessy P, Chiang CH, Kristensen VN, Bilke S, Gardner K.

Am J Pathol. 2008 Feb;172(2):495-509. doi: 10.2353/ajpath.2008.061079. Epub 2008 Jan 10.


Multiple non-collinear TF-map alignments of promoter regions.

Blanco E, Guigó R, Messeguer X.

BMC Bioinformatics. 2007 Apr 24;8:138.


The SCL transcriptional network and BMP signaling pathway interact to regulate RUNX1 activity.

Pimanda JE, Donaldson IJ, de Bruijn MF, Kinston S, Knezevic K, Huckle L, Piltz S, Landry JR, Green AR, Tannahill D, Göttgens B.

Proc Natl Acad Sci U S A. 2007 Jan 16;104(3):840-5. Epub 2007 Jan 9.


GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologs.

Jegga AG, Chen J, Gowrisankar S, Deshmukh MA, Gudivada R, Kong S, Kaimal V, Aronow BJ.

Nucleic Acids Res. 2007 Jan;35(Database issue):D116-21. Epub 2006 Dec 18.


Biological code breaking in the 21st century.

Michelson AM, Bulyk ML.

Mol Syst Biol. 2006;2:2006.0018. Epub 2006 May 2. No abstract available.


Human promoter genomic composition demonstrates non-random groupings that reflect general cellular function.

McNutt MC, Tongbai R, Cui W, Collins I, Freebern WJ, Montano I, Haggerty CM, Chandramouli G, Gardner K.

BMC Bioinformatics. 2005 Oct 18;6:259.


CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes.

Jegga AG, Gupta A, Gowrisankar S, Deshmukh MA, Connolly S, Finley K, Aronow BJ.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W408-11. Erratum in: Nucleic Acids Res. 2005;33(13):4377.


Kinetic profiles of p300 occupancy in vivo predict common features of promoter structure and coactivator recruitment.

Smith JL, Freebern WJ, Collins I, De Siervi A, Montano I, Haggerty CM, McNutt MC, Butscher WG, Dzekunova I, Petersen DW, Kawasaki E, Merchant JL, Gardner K.

Proc Natl Acad Sci U S A. 2004 Aug 10;101(32):11554-9. Epub 2004 Jul 30.

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