메뉴 건너뛰기




Volumn 27, Issue 20, 2011, Pages 2806-2811

SiTaR: A novel tool for transcription factor binding site prediction

Author keywords

[No Author keywords available]

Indexed keywords

PHYTOLACCACEAE;

EID: 80053946203     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btr492     Document Type: Article
Times cited : (14)

References (18)
  • 2
    • 36549027333 scopus 로고    scopus 로고
    • Exploring conservation of transcription factor binding sites with CONREAL
    • Berezikov, E. et al. (2007) Exploring conservation of transcription factor binding sites with CONREAL. Methods Mol. Biol., 395, 437-448.
    • (2007) Methods Mol. Biol. , vol.395 , pp. 437-448
    • Berezikov, E.1
  • 3
    • 0023147228 scopus 로고
    • Selection of DNA binding sites by regulatory proteins Statistical-mechanical theory and application to operators and promoters
    • Berg, O.G. and von Hippel, P.H. (1987) Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters. J. Mol. Biol., 193, 723-750.
    • (1987) J. Mol. Biol. , vol.193 , pp. 723-750
    • Berg, O.G.1    von Hippel, P.H.2
  • 4
    • 38549096565 scopus 로고    scopus 로고
    • JASPAR, the open access database of transcription factorbindng profiles: new content and tools in the 2008 update
    • Bryne, J.C. et al. (2008) JASPAR, the open access database of transcription factorbindng profiles: new content and tools in the 2008 update. Nucleic Acids Res., 36, D102-D106.
    • (2008) Nucleic Acids Res , vol.36
    • Bryne, J.C.1
  • 5
    • 21444443478 scopus 로고    scopus 로고
    • MatInspector and beyond: promoter analysis based on transcription factor binding sites
    • Cartharius, K. et al. (2005) MatInspector and beyond: promoter analysis based on transcription factor binding sites. Bioinformatics, 21, 2933-2942.
    • (2005) Bioinformatics , vol.21 , pp. 2933-2942
    • Cartharius, K.1
  • 6
    • 23144431724 scopus 로고    scopus 로고
    • P-Match: transcription factor binding site search by combining patterns and weight matrices
    • Chekmenev, D.S. et al. (2005) P-Match: transcription factor binding site search by combining patterns and weight matrices. Nucleic Acids Res., 33, W432-W437.
    • (2005) Nucleic Acids Res , vol.33
    • Chekmenev, D.S.1
  • 7
    • 0037100636 scopus 로고    scopus 로고
    • Statistical significance of clusters of motifs represented by position specific scoring matrices in nucleotide sequences
    • Frith, M.C. et al. (2002) Statistical significance of clusters of motifs represented by position specific scoring matrices in nucleotide sequences. Nucleic Acids Res., 30, 3214-3224.
    • (2002) Nucleic Acids Res , vol.30 , pp. 3214-3224
    • Frith, M.C.1
  • 8
    • 66349126697 scopus 로고    scopus 로고
    • DISCOVER: a feature-based discriminative method for motif search in complex genomes
    • Fu, W. et al. (2009) DISCOVER: a feature-based discriminative method for motif search in complex genomes. Bioinformatics, 25, i321-i329.
    • (2009) Bioinformatics , vol.25
    • Fu, W.1
  • 9
    • 78049460643 scopus 로고    scopus 로고
    • An intuitionistic approach to scoring DNA sequences against transcription factor binding site motifs
    • Garcia-Alcalde, F. et al. (2010) An intuitionistic approach to scoring DNA sequences against transcription factor binding site motifs. BMC Bioinformatics, 11, 551.
    • (2010) BMC Bioinformatics , vol.11 , pp. 551
    • Garcia-Alcalde, F.1
  • 10
    • 0036133044 scopus 로고    scopus 로고
    • AliBaba2: context specific identification of transcription factor binding sites
    • Grabe, N. (2002) AliBaba2: context specific identification of transcription factor binding sites. In Silico Biol., 2, S1-S15.
    • (2002) In Silico Biol , vol.2
    • Grabe, N.1
  • 11
    • 33747817698 scopus 로고    scopus 로고
    • VOMBAT: prediction of transcription factor binding sites using variable order Bayesian trees
    • Grau, J. et al. (2006) VOMBAT: prediction of transcription factor binding sites using variable order Bayesian trees. Nucleic Acids Res., 34, W529-W533.
    • (2006) Nucleic Acids Res , vol.34
    • Grau, J.1
  • 12
    • 58149293009 scopus 로고    scopus 로고
    • CORE_TF: a user-friendly interface to identify evolutionary conserved transcription factor binding sites in sets of co-regulated genes
    • Hestand, M.S. et al. (2008) CORE_TF: a user-friendly interface to identify evolutionary conserved transcription factor binding sites in sets of co-regulated genes. BMC Bioinformatics, 9, 495.
    • (2008) BMC Bioinformatics , vol.9 , pp. 495
    • Hestand, M.S.1
  • 13
    • 0033452784 scopus 로고    scopus 로고
    • Genome-wide analysis of gene expression regulated by the yeast cell wall integrity signalling pathway
    • Jung, U.S. and Levin, D.E. (1999) Genome-wide analysis of gene expression regulated by the yeast cell wall integrity signalling pathway. Mol. Microbiol., 34, 1049-1057.
    • (1999) Mol. Microbiol. , vol.34 , pp. 1049-1057
    • Jung, U.S.1    Levin, D.E.2
  • 14
    • 0041853625 scopus 로고    scopus 로고
    • MATCH A tool for searching transcription factor binding sites in DNA sequences
    • Kel, A.E. et al. (2003) MATCH A tool for searching transcription factor binding sites in DNA sequences. Nucleic Acids Res., 31, 3576-3579.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3576-3579
    • Kel, A.E.1
  • 15
    • 0037208166 scopus 로고    scopus 로고
    • TRANSFAC® transcriptional regulation, from patterns to profiles
    • Matys, V. et al. (2003) TRANSFAC® transcriptional regulation, from patterns to profiles. Nucleic Acids Res., 31, 374-378.
    • (2003) Nucleic Acids Res , vol.31 , pp. 374-378
    • Matys, V.1
  • 16
    • 70350449676 scopus 로고    scopus 로고
    • Prediction of motifs based on a repeated-measures model for integrating cross-species sequence and expression data
    • Article 36
    • Siewert, E.A. and Kechris, K.J. (2009) Prediction of motifs based on a repeated-measures model for integrating cross-species sequence and expression data. Stat. Appl. Genet. Mol. Biol., 8, Article 36.
    • (2009) Stat. Appl. Genet. Mol. Biol. , vol.8
    • Siewert, E.A.1    Kechris, K.J.2
  • 17
    • 0043123063 scopus 로고    scopus 로고
    • Gibbs Recursive Sampler: finding transcription factor binding sites
    • Thompson, W. et al. (2003) Gibbs Recursive Sampler: finding transcription factor binding sites. Nucleic Acids Res., 31, 3580-3585.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3580-3585
    • Thompson, W.1
  • 18
    • 52749097035 scopus 로고    scopus 로고
    • Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules
    • Turatsinze, J.V. et al. (2008) Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules. Nat. Protoc., 3, 1578-1588.
    • (2008) Nat. Protoc. , vol.3 , pp. 1578-1588
    • Turatsinze, J.V.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.