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Items: 1 to 20 of 77

1.

Tissue-specific regulatory elements in mammalian promoters.

Smith AD, Sumazin P, Zhang MQ.

Mol Syst Biol. 2007;3:73. Epub 2007 Jan 16.

3.

DNA motifs in human and mouse proximal promoters predict tissue-specific expression.

Smith AD, Sumazin P, Xuan Z, Zhang MQ.

Proc Natl Acad Sci U S A. 2006 Apr 18;103(16):6275-80. Epub 2006 Apr 10.

4.

An integrative ChIP-chip and gene expression profiling to model SMAD regulatory modules.

Qin H, Chan MW, Liyanarachchi S, Balch C, Potter D, Souriraj IJ, Cheng AS, Agosto-Perez FJ, Nikonova EV, Yan PS, Lin HJ, Nephew KP, Saltz JH, Showe LC, Huang TH, Davuluri RV.

BMC Syst Biol. 2009 Jul 17;3:73. doi: 10.1186/1752-0509-3-73.

5.

ModuleMiner - improved computational detection of cis-regulatory modules: are there different modes of gene regulation in embryonic development and adult tissues?

Van Loo P, Aerts S, Thienpont B, De Moor B, Moreau Y, Marynen P.

Genome Biol. 2008 Apr 7;9(4):R66. doi: 10.1186/gb-2008-9-4-r66.

6.

Development of a novel data mining tool to find cis-elements in rice gene promoter regions.

Doi K, Hosaka A, Nagata T, Satoh K, Suzuki K, Mauleon R, Mendoza MJ, Bruskiewich R, Kikuchi S.

BMC Plant Biol. 2008 Feb 27;8:20. doi: 10.1186/1471-2229-8-20.

7.

Identifying the conserved network of cis-regulatory sites of a eukaryotic genome.

Wang T, Stormo GD.

Proc Natl Acad Sci U S A. 2005 Nov 29;102(48):17400-5. Epub 2005 Nov 21.

8.

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.

9.

Predicting distinct organization of transcription factor binding sites on the promoter regions: a new genome-based approach to expand human embryonic stem cell regulatory network.

Hosseinpour B, Bakhtiarizadeh MR, Khosravi P, Ebrahimie E.

Gene. 2013 Dec 1;531(2):212-9. doi: 10.1016/j.gene.2013.09.011. Epub 2013 Sep 13.

PMID:
24042128
10.
11.

A correlation with exon expression approach to identify cis-regulatory elements for tissue-specific alternative splicing.

Das D, Clark TA, Schweitzer A, Yamamoto M, Marr H, Arribere J, Minovitsky S, Poliakov A, Dubchak I, Blume JE, Conboy JG.

Nucleic Acids Res. 2007;35(14):4845-57. Epub 2007 Jul 10.

12.

Computational search for over-represented 8-mers within the 5'-regulatory regions of 634 mouse testis-specific genes.

Yamashita A, Goto N, Nishiguchi S, Shimada K, Yamanishi H, Yasunaga T.

Gene. 2008 Dec 31;427(1-2):93-8. doi: 10.1016/j.gene.2008.08.018. Epub 2008 Sep 5.

PMID:
18817858
13.

A mammalian promoter model links cis elements to genetic networks.

Wang J, Hannenhalli S.

Biochem Biophys Res Commun. 2006 Aug 18;347(1):166-77. Epub 2006 Jun 21.

PMID:
16806065
14.

A multistep bioinformatic approach detects putative regulatory elements in gene promoters.

Bortoluzzi S, Coppe A, Bisognin A, Pizzi C, Danieli GA.

BMC Bioinformatics. 2005 May 18;6:121.

15.

Tissue-specific and ubiquitous expression patterns from alternative promoters of human genes.

Jacox E, Gotea V, Ovcharenko I, Elnitski L.

PLoS One. 2010 Aug 18;5(8):e12274. doi: 10.1371/journal.pone.0012274.

16.

Target gene identification from expression array data by promoter analysis.

Werner T.

Biomol Eng. 2001 Mar;17(3):87-94. Review.

PMID:
11222983
17.

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

Nelander S, Larsson E, Kristiansson E, MÃ¥nsson R, Nerman O, Sigvardsson M, Mostad P, Lindahl P.

BMC Genomics. 2005 May 9;6:68.

18.

Genome-wide identification of cis-regulatory motifs and modules underlying gene coregulation using statistics and phylogeny.

Rouault H, Mazouni K, Couturier L, Hakim V, Schweisguth F.

Proc Natl Acad Sci U S A. 2010 Aug 17;107(33):14615-20. doi: 10.1073/pnas.1002876107. Epub 2010 Jul 29.

19.

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.

20.

PRECISE: software for prediction of cis-acting regulatory elements.

Trindade LM, van Berloo R, Fiers M, Visser RG.

J Hered. 2005 Sep-Oct;96(5):618-22. Epub 2005 Aug 31.

PMID:
16135709

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