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Results: 11

1.

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.

PMID:
24871320
[PubMed - in process]
Free PMC Article
2.

Identification of novel motif patterns to decipher the promoter architecture of co-expressed genes in Arabidopsis thaliana.

López Y, Patil A, Nakai K.

BMC Syst Biol. 2013 Oct 16;7 Suppl 3:S10. doi: 10.1186/1752-0509-7-S3-S10.

PMID:
24555803
[PubMed - in process]
Free PMC Article
3.

Discriminative motif discovery via simulated evolution and random under-sampling.

Song T, Gu H.

PLoS One. 2014 Feb 13;9(2):e87670. doi: 10.1371/journal.pone.0087670. eCollection 2014.

PMID:
24551063
[PubMed - in process]
Free PMC Article
4.

The limits of de novo DNA motif discovery.

Simcha D, Price ND, Geman D.

PLoS One. 2012;7(11):e47836. doi: 10.1371/journal.pone.0047836. Epub 2012 Nov 7.

PMID:
23144830
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Systematic prediction of cis-regulatory elements in the Chlamydomonas reinhardtii genome using comparative genomics.

Ding J, Li X, Hu H.

Plant Physiol. 2012 Oct;160(2):613-23. doi: 10.1104/pp.112.200840. Epub 2012 Aug 22.

PMID:
22915576
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

DECOD: fast and accurate discriminative DNA motif finding.

Huggins P, Zhong S, Shiff I, Beckerman R, Laptenko O, Prives C, Schulz MH, Simon I, Bar-Joseph Z.

Bioinformatics. 2011 Sep 1;27(17):2361-7. doi: 10.1093/bioinformatics/btr412. Epub 2011 Jul 12.

PMID:
21752801
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

MotifClick: prediction of cis-regulatory binding sites via merging cliques.

Zhang S, Li S, Niu M, Pham PT, Su Z.

BMC Bioinformatics. 2011 Jun 16;12:238. doi: 10.1186/1471-2105-12-238.

PMID:
21679436
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

WordSeeker: concurrent bioinformatics software for discovering genome-wide patterns and word-based genomic signatures.

Lichtenberg J, Kurz K, Liang X, Al-ouran R, Neiman L, Nau LJ, Welch JD, Jacox E, Bitterman T, Ecker K, Elnitski L, Drews F, Lee SS, Welch LR.

BMC Bioinformatics. 2010 Dec 21;11 Suppl 12:S6. doi: 10.1186/1471-2105-11-S12-S6.

PMID:
21210985
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Seed storage protein gene promoters contain conserved DNA motifs in Brassicaceae, Fabaceae and Poaceae.

Fauteux F, Strömvik MV.

BMC Plant Biol. 2009 Oct 20;9:126. doi: 10.1186/1471-2229-9-126.

PMID:
19843335
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Efficient exact motif discovery.

Marschall T, Rahmann S.

Bioinformatics. 2009 Jun 15;25(12):i356-64. doi: 10.1093/bioinformatics/btp188.

PMID:
19478010
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Evolutionary computation for discovery of composite transcription factor binding sites.

Fogel GB, Porto VW, Varga G, Dow ER, Craven AM, Powers DM, Harlow HB, Su EW, Onyia JE, Su C.

Nucleic Acids Res. 2008 Dec;36(21):e142. doi: 10.1093/nar/gkn738. Epub 2008 Oct 15.

PMID:
18927103
[PubMed - indexed for MEDLINE]
Free PMC Article

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