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Items: 1 to 20 of 168

1.

Conservation and regulatory associations of a wide affinity range of mouse transcription factor binding sites.

Jaeger SA, Chan ET, Berger MF, Stottmann R, Hughes TR, Bulyk ML.

Genomics. 2010 Apr;95(4):185-95. doi: 10.1016/j.ygeno.2010.01.002. Epub 2010 Jan 15.

2.

GPMiner: an integrated system for mining combinatorial cis-regulatory elements in mammalian gene group.

Lee TY, Chang WC, Hsu JB, Chang TH, Shien DM.

BMC Genomics. 2012;13 Suppl 1:S3. doi: 10.1186/1471-2164-13-S1-S3. Epub 2012 Jan 17.

3.

Imprinted genes show unique patterns of sequence conservation.

Hutter B, Bieg M, Helms V, Paulsen M.

BMC Genomics. 2010 Nov 22;11:649. doi: 10.1186/1471-2164-11-649.

4.

All and only CpG containing sequences are enriched in promoters abundantly bound by RNA polymerase II in multiple tissues.

Rozenberg JM, Shlyakhtenko A, Glass K, Rishi V, Myakishev MV, FitzGerald PC, Vinson C.

BMC Genomics. 2008 Feb 5;9:67. doi: 10.1186/1471-2164-9-67.

5.

Genome-wide comparative analysis reveals human-mouse regulatory landscape and evolution.

Denas O, Sandstrom R, Cheng Y, Beal K, Herrero J, Hardison RC, Taylor J.

BMC Genomics. 2015 Feb 14;16:87. doi: 10.1186/s12864-015-1245-6.

6.

High-resolution DNA-binding specificity analysis of yeast transcription factors.

Zhu C, Byers KJ, McCord RP, Shi Z, Berger MF, Newburger DE, Saulrieta K, Smith Z, Shah MV, Radhakrishnan M, Philippakis AA, Hu Y, De Masi F, Pacek M, Rolfs A, Murthy T, Labaer J, Bulyk ML.

Genome Res. 2009 Apr;19(4):556-66. doi: 10.1101/gr.090233.108. Epub 2009 Jan 21.

7.

A comparative analysis of transcription factor binding models learned from PBM, HT-SELEX and ChIP data.

Orenstein Y, Shamir R.

Nucleic Acids Res. 2014 Apr;42(8):e63. doi: 10.1093/nar/gku117. Epub 2014 Feb 5.

8.

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
9.

A functional and evolutionary perspective on transcription factor binding in Arabidopsis thaliana.

Heyndrickx KS, Van de Velde J, Wang C, Weigel D, Vandepoele K.

Plant Cell. 2014 Oct;26(10):3894-910. doi: 10.1105/tpc.114.130591. Epub 2014 Oct 31.

10.

Genomic structure and analysis of transcriptional regulation of the mouse zinc-fingers and homeoboxes 1 (ZHX1) gene.

Shou Z, Yamada K, Inazu T, Kawata H, Hirano S, Mizutani T, Yazawa T, Sekiguchi T, Yoshino M, Kajitani T, Okada K, Miyamoto K.

Gene. 2003 Jan 2;302(1-2):83-94.

PMID:
12527199
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13.

A regression analysis of gene expression in ES cells reveals two gene classes that are significantly different in epigenetic patterns.

Park SJ, Nakai K.

BMC Bioinformatics. 2011 Feb 15;12 Suppl 1:S50. doi: 10.1186/1471-2105-12-S1-S50.

14.

Most of the tight positional conservation of transcription factor binding sites near the transcription start site reflects their co-localization within regulatory modules.

Acevedo-Luna N, Mariño-Ramírez L, Halbert A, Hansen U, Landsman D, Spouge JL.

BMC Bioinformatics. 2016 Nov 21;17(1):479.

15.

The functional consequences of variation in transcription factor binding.

Cusanovich DA, Pavlovic B, Pritchard JK, Gilad Y.

PLoS Genet. 2014 Mar 6;10(3):e1004226. doi: 10.1371/journal.pgen.1004226. eCollection 2014 Mar.

16.

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.

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19.

A biophysical model for analysis of transcription factor interaction and binding site arrangement from genome-wide binding data.

He X, Chen CC, Hong F, Fang F, Sinha S, Ng HH, Zhong S.

PLoS One. 2009 Dec 1;4(12):e8155. doi: 10.1371/journal.pone.0008155.

20.

Transcriptional regulation of the mouse PNRC2 promoter by the nuclear factor Y (NFY) and E2F1.

Zhou D, Masri S, Ye JJ, Chen S.

Gene. 2005 Nov 21;361:89-100. Epub 2005 Sep 21.

PMID:
16181749

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