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Items: 1 to 20 of 113

1.

DRIMust: a web server for discovering rank imbalanced motifs using suffix trees.

Leibovich L, Paz I, Yakhini Z, Mandel-Gutfreund Y.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W174-9. doi: 10.1093/nar/gkt407.

2.

Efficient motif search in ranked lists and applications to variable gap motifs.

Leibovich L, Yakhini Z.

Nucleic Acids Res. 2012 Jul;40(13):5832-47. doi: 10.1093/nar/gks206.

3.

Discovering motifs in ranked lists of DNA sequences.

Eden E, Lipson D, Yogev S, Yakhini Z.

PLoS Comput Biol. 2007 Mar 23;3(3):e39.

4.

The XXmotif web server for eXhaustive, weight matriX-based motif discovery in nucleotide sequences.

Luehr S, Hartmann H, Söding J.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W104-9. doi: 10.1093/nar/gks602.

5.

SLiMFinder: a web server to find novel, significantly over-represented, short protein motifs.

Davey NE, Haslam NJ, Shields DC, Edwards RJ.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W534-9. doi: 10.1093/nar/gkq440.

6.

SCOPE: a web server for practical de novo motif discovery.

Carlson JM, Chakravarty A, DeZiel CE, Gross RH.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W259-64.

7.

The SLiMDisc server: short, linear motif discovery in proteins.

Davey NE, Edwards RJ, Shields DC.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W455-9.

8.

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.

9.

Discovering sequence motifs.

Bailey TL.

Methods Mol Biol. 2008;452:231-51. doi: 10.1007/978-1-60327-159-2_12. Review.

PMID:
18566768
10.

SeAMotE: a method for high-throughput motif discovery in nucleic acid sequences.

Agostini F, Cirillo D, Ponti RD, Tartaglia GG.

BMC Genomics. 2014 Oct 23;15:925. doi: 10.1186/1471-2164-15-925.

11.

SFmap: a web server for motif analysis and prediction of splicing factor binding sites.

Paz I, Akerman M, Dror I, Kosti I, Mandel-Gutfreund Y.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W281-5. doi: 10.1093/nar/gkq444.

12.

CodingMotif: exact determination of overrepresented nucleotide motifs in coding sequences.

Ding Y, Lorenz WA, Chuang JH.

BMC Bioinformatics. 2012 Feb 14;13:32. doi: 10.1186/1471-2105-13-32.

13.

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

Hu J, Yang YD, Kihara D.

BMC Bioinformatics. 2006 Jul 13;7:342.

14.

Discovering sequence motifs.

Bailey TL.

Methods Mol Biol. 2007;395:271-92. Review.

PMID:
17993680
15.

DMINDA: an integrated web server for DNA motif identification and analyses.

Ma Q, Zhang H, Mao X, Zhou C, Liu B, Chen X, Xu Y.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W12-9. doi: 10.1093/nar/gku315.

16.

Quadfinder: server for identification and analysis of quadruplex-forming motifs in nucleotide sequences.

Scaria V, Hariharan M, Arora A, Maiti S.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W683-5.

17.

Motif Tool Manager: a web-based framework for motif discovery.

Phan V, Furlotte NA.

Bioinformatics. 2008 Dec 15;24(24):2930-1. doi: 10.1093/bioinformatics/btn559.

18.
19.

The MEME Suite.

Bailey TL, Johnson J, Grant CE, Noble WS.

Nucleic Acids Res. 2015 Jul 1;43(W1):W39-49. doi: 10.1093/nar/gkv416.

20.

rMotifGen: random motif generator for DNA and protein sequences.

Rouchka EC, Hardin CT.

BMC Bioinformatics. 2007 Aug 7;8:292.

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