Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Results: 1 to 20 of 95

1.

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
2.

The word landscape of the non-coding segments of the Arabidopsis thaliana genome.

Lichtenberg J, Yilmaz A, Welch JD, Kurz K, Liang X, Drews F, Ecker K, Lee SS, Geisler M, Grotewold E, Welch LR.

BMC Genomics. 2009 Oct 8;10:463. doi: 10.1186/1471-2164-10-463.

PMID:
19814816
[PubMed - indexed for MEDLINE]
Free PMC Article
3.
4.

A clustering method for repeat analysis in DNA sequences.

Volfovsky N, Haas BJ, Salzberg SL.

Genome Biol. 2001;2(8):RESEARCH0027. Epub 2001 Aug 1.

PMID:
11532211
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

AGRIS: Arabidopsis gene regulatory information server, an information resource of Arabidopsis cis-regulatory elements and transcription factors.

Davuluri RV, Sun H, Palaniswamy SK, Matthews N, Molina C, Kurtz M, Grotewold E.

BMC Bioinformatics. 2003 Jun 23;4:25. Epub 2003 Jun 23.

PMID:
12820902
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Ab initio identification of putative human transcription factor binding sites by comparative genomics.

Corà D, Herrmann C, Dieterich C, Di Cunto F, Provero P, Caselle M.

BMC Bioinformatics. 2005 May 2;6:110.

PMID:
15865625
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

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.

PMID:
17381235
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

cisExpress: motif detection in DNA sequences.

Triska M, Grocutt D, Southern J, Murphy DJ, Tatarinova T.

Bioinformatics. 2013 Sep 1;29(17):2203-5. doi: 10.1093/bioinformatics/btt366. Epub 2013 Jun 21.

PMID:
23793750
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Bioinformatics and genomic analysis of transposable elements in eukaryotic genomes.

Janicki M, Rooke R, Yang G.

Chromosome Res. 2011 Aug;19(6):787-808. doi: 10.1007/s10577-011-9230-7.

PMID:
21850457
[PubMed - indexed for MEDLINE]
10.

Genome-wide analysis of ABA-responsive elements ABRE and CE3 reveals divergent patterns in Arabidopsis and rice.

Gómez-Porras JL, Riaño-Pachón DM, Dreyer I, Mayer JE, Mueller-Roeber B.

BMC Genomics. 2007 Aug 1;8:260.

PMID:
17672917
[PubMed - indexed for MEDLINE]
Free PMC Article
11.
12.

Bioinformatics for the 'bench biologist': how to find regulatory regions in genomic DNA.

Nardone J, Lee DU, Ansel KM, Rao A.

Nat Immunol. 2004 Aug;5(8):768-74. Review.

PMID:
15282556
[PubMed - indexed for MEDLINE]
13.

Floral gene resources from basal angiosperms for comparative genomics research.

Albert VA, Soltis DE, Carlson JE, Farmerie WG, Wall PK, Ilut DC, Solow TM, Mueller LA, Landherr LL, Hu Y, Buzgo M, Kim S, Yoo MJ, Frohlich MW, Perl-Treves R, Schlarbaum SE, Bliss BJ, Zhang X, Tanksley SD, Oppenheimer DG, Soltis PS, Ma H, DePamphilis CW, Leebens-Mack JH.

BMC Plant Biol. 2005 Mar 30;5:5.

PMID:
15799777
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Functional and structural genomics using PEDANT.

Frishman D, Albermann K, Hani J, Heumann K, Metanomski A, Zollner A, Mewes HW.

Bioinformatics. 2001 Jan;17(1):44-57.

PMID:
11222261
[PubMed - indexed for MEDLINE]
Free Article
15.

An integrated toolkit for accurate prediction and analysis of cis-regulatory motifs at a genome scale.

Ma Q, Liu B, Zhou C, Yin Y, Li G, Xu Y.

Bioinformatics. 2013 Sep 15;29(18):2261-8. doi: 10.1093/bioinformatics/btt397. Epub 2013 Jul 10.

PMID:
23846744
[PubMed - indexed for MEDLINE]
Free Article
16.

Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence.

You FM, Huo N, Deal KR, Gu YQ, Luo MC, McGuire PE, Dvorak J, Anderson OD.

BMC Genomics. 2011 Jan 25;12:59. doi: 10.1186/1471-2164-12-59.

PMID:
21266061
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Genome-scale computational analysis of DNA curvature and repeats in Arabidopsis and rice uncovers plant-specific genomic properties.

Masoudi-Nejad A, Movahedi S, Jáuregui R.

BMC Genomics. 2011 May 6;12:214. doi: 10.1186/1471-2164-12-214.

PMID:
21548945
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

MotifMap: integrative genome-wide maps of regulatory motif sites for model species.

Daily K, Patel VR, Rigor P, Xie X, Baldi P.

BMC Bioinformatics. 2011 Dec 30;12:495. doi: 10.1186/1471-2105-12-495.

PMID:
22208852
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Alignments anchored on genomic landmarks can aid in the identification of regulatory elements.

Tharakaraman K, Mariño-Ramírez L, Sheetlin S, Landsman D, Spouge JL.

Bioinformatics. 2005 Jun;21 Suppl 1:i440-8.

PMID:
15961489
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

MotifOrganizer: a scalable model-based motif clustering tool for mammalian genomes.

Qin ZS, Bilenky M, Su G, Jones SJ.

Front Biosci (Elite Ed). 2013 Jan 1;5:785-97.

PMID:
23277033
[PubMed - indexed for MEDLINE]

Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Write to the Help Desk