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Items: 1 to 20 of 99

1.

Compo: composite motif discovery using discrete models.

Sandve GK, Abul O, Drabløs F.

BMC Bioinformatics. 2008 Dec 8;9:527. doi: 10.1186/1471-2105-9-527.

2.

Improved benchmarks for computational motif discovery.

Sandve GK, Abul O, Walseng V, Drabløs F.

BMC Bioinformatics. 2007 Jun 8;8:193.

3.

Assessment of composite motif discovery methods.

Klepper K, Sandve GK, Abul O, Johansen J, Drablos F.

BMC Bioinformatics. 2008 Feb 26;9:123. doi: 10.1186/1471-2105-9-123.

4.

A Monte Carlo-based framework enhances the discovery and interpretation of regulatory sequence motifs.

Seitzer P, Wilbanks EG, Larsen DJ, Facciotti MT.

BMC Bioinformatics. 2012 Nov 27;13:317. doi: 10.1186/1471-2105-13-317.

5.
6.

GAME: detecting cis-regulatory elements using a genetic algorithm.

Wei Z, Jensen ST.

Bioinformatics. 2006 Jul 1;22(13):1577-84. Epub 2006 Apr 21.

PMID:
16632495
7.

HeliCis: a DNA motif discovery tool for colocalized motif pairs with periodic spacing.

Larsson E, Lindahl P, Mostad P.

BMC Bioinformatics. 2007 Oct 28;8:418.

8.

Variable structure motifs for transcription factor binding sites.

Reid JE, Evans KJ, Dyer N, Wernisch L, Ott S.

BMC Genomics. 2010 Jan 14;11:30. doi: 10.1186/1471-2164-11-30.

9.

PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny.

Siddharthan R, Siggia ED, van Nimwegen E.

PLoS Comput Biol. 2005 Dec;1(7):e67. Epub 2005 Dec 9.

10.
11.

Transcription factor and microRNA motif discovery: the Amadeus platform and a compendium of metazoan target sets.

Linhart C, Halperin Y, Shamir R.

Genome Res. 2008 Jul;18(7):1180-9. doi: 10.1101/gr.076117.108. Epub 2008 Apr 14.

12.

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. doi: 10.1186/1471-2105-9-455.

13.

Using SCOPE to identify potential regulatory motifs in coregulated genes.

Martyanov V, Gross RH.

J Vis Exp. 2011 May 31;(51). pii: 2703. doi: 10.3791/2703.

14.

The effect of orthology and coregulation on detecting regulatory motifs.

Storms V, Claeys M, Sanchez A, De Moor B, Verstuyf A, Marchal K.

PLoS One. 2010 Feb 3;5(2):e8938. doi: 10.1371/journal.pone.0008938.

17.

EMD: an ensemble algorithm for discovering regulatory motifs in DNA sequences.

Hu J, Yang YD, Kihara D.

BMC Bioinformatics. 2006 Jul 13;7:342.

18.

Quantifying similarity between motifs.

Gupta S, Stamatoyannopoulos JA, Bailey TL, Noble WS.

Genome Biol. 2007;8(2):R24.

19.

Localized motif discovery in gene regulatory sequences.

Narang V, Mittal A, Sung WK.

Bioinformatics. 2010 May 1;26(9):1152-9. doi: 10.1093/bioinformatics/btq106. Epub 2010 Mar 11.

PMID:
20223835
20.

Encoded expansion: an efficient algorithm to discover identical string motifs.

Azmi AM, Al-Ssulami A.

PLoS One. 2014 May 28;9(5):e95148. doi: 10.1371/journal.pone.0095148. eCollection 2014.

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