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Results: 1 to 20 of 100

1.

Boosting with stumps for predicting transcription start sites.

Zhao X, Xuan Z, Zhang MQ.

Genome Biol. 2007;8(2):R17.

PMID:
17274821
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Generic eukaryotic core promoter prediction using structural features of DNA.

Abeel T, Saeys Y, Bonnet E, Rouzé P, Van de Peer Y.

Genome Res. 2008 Feb;18(2):310-23. Epub 2007 Dec 20.

PMID:
18096745
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

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.

PMID:
22369687
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Promoter analysis: gene regulatory motif identification with A-GLAM.

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

Methods Mol Biol. 2009;537:263-76. doi: 10.1007/978-1-59745-251-9_13.

PMID:
19378149
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Ensemble approach combining multiple methods improves human transcription start site prediction.

Dineen DG, Schröder M, Higgins DG, Cunningham P.

BMC Genomics. 2010 Nov 30;11:677. doi: 10.1186/1471-2164-11-677.

PMID:
21118509
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

V1R promoters are well conserved and exhibit common putative regulatory motifs.

Stewart R, Lane RP.

BMC Genomics. 2007 Jul 25;8:253.

PMID:
17651493
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Performance assessment of promoter predictions on ENCODE regions in the EGASP experiment.

Bajic VB, Brent MR, Brown RH, Frankish A, Harrow J, Ohler U, Solovyev VV, Tan SL.

Genome Biol. 2006;7 Suppl 1:S3.1-13. Epub 2006 Aug 7. Review.

PMID:
16925837
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

High sensitivity TSS prediction: estimates of locations where TSS cannot occur.

Schaefer U, Kodzius R, Kai C, Kawai J, Carninci P, Hayashizaki Y, Bajic VB.

PLoS One. 2010 Nov 15;5(11):e13934. doi: 10.1371/journal.pone.0013934.

PMID:
21085627
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Comparative promoter region analysis powered by CORG.

Dieterich C, Grossmann S, Tanzer A, Röpcke S, Arndt PF, Stadler PF, Vingron M.

BMC Genomics. 2005 Feb 21;6:24.

PMID:
15723697
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Prediction of transcription start sites based on feature selection using AMOSA.

Wang X, Bandyopadhyay S, Xuan Z, Zhao X, Zhang MQ, Zhang X.

Comput Syst Bioinformatics Conf. 2007;6:183-93.

PMID:
17951823
[PubMed - indexed for MEDLINE]
Free Article
11.

DoOPSearch: a web-based tool for finding and analysing common conserved motifs in the promoter regions of different chordate and plant genes.

Sebestyén E, Nagy T, Suhai S, Barta E.

BMC Bioinformatics. 2009 Jun 16;10 Suppl 6:S6. doi: 10.1186/1471-2105-10-S6-S6.

PMID:
19534755
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

DBTSS provides a tissue specific dynamic view of Transcription Start Sites.

Yamashita R, Wakaguri H, Sugano S, Suzuki Y, Nakai K.

Nucleic Acids Res. 2010 Jan;38(Database issue):D98-104. doi: 10.1093/nar/gkp1017. Epub 2009 Nov 12.

PMID:
19910371
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

A new systematic computational approach to predicting target genes of transcription factors.

Dai X, He J, Zhao X.

Nucleic Acids Res. 2007;35(13):4433-40. Epub 2007 Jun 18.

PMID:
17576669
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

High-resolution human core-promoter prediction with CoreBoost_HM.

Wang X, Xuan Z, Zhao X, Li Y, Zhang MQ.

Genome Res. 2009 Feb;19(2):266-75. doi: 10.1101/gr.081638.108. Epub 2008 Nov 7.

PMID:
18997002
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

[RTPS].

Kasukawa T.

Tanpakushitsu Kakusan Koso. 2004 Dec;49(17 Suppl):2871-6. Review. Japanese. No abstract available.

PMID:
15669269
[PubMed - indexed for MEDLINE]
16.

EnsemPro: an ensemble approach to predicting transcription start sites in human genomic DNA sequences.

Won HH, Kim MJ, Kim S, Kim JW.

Genomics. 2008 Mar;91(3):259-66. doi: 10.1016/j.ygeno.2007.11.001.

PMID:
18164178
[PubMed - indexed for MEDLINE]
Free Article
17.

Hon-yaku: a biology-driven Bayesian methodology for identifying translation initiation sites in prokaryotes.

Makita Y, de Hoon MJ, Danchin A.

BMC Bioinformatics. 2007 Feb 8;8:47.

PMID:
17286872
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Computational detection and location of transcription start sites in mammalian genomic DNA.

Down TA, Hubbard TJ.

Genome Res. 2002 Mar;12(3):458-61.

PMID:
11875034
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Automatic annotation of eukaryotic genes, pseudogenes and promoters.

Solovyev V, Kosarev P, Seledsov I, Vorobyev D.

Genome Biol. 2006;7 Suppl 1:S10.1-12. Epub 2006 Aug 7.

PMID:
16925832
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

PromAn: an integrated knowledge-based web server dedicated to promoter analysis.

Lardenois A, Chalmel F, Bianchetti L, Sahel JA, Léveillard T, Poch O.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W578-83.

PMID:
16845074
[PubMed - indexed for MEDLINE]
Free PMC Article

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