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Volumn 4, Issue 4, 2004, Pages 479-487

Annotating significant pairs of transcription factor binding sites in regulatory DNA

Author keywords

Recognition of genes and regulatory elements; Score matrix; Transcription factor binding site

Indexed keywords

TRANSCRIPTION FACTOR;

EID: 14944364919     PISSN: 13866338     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (1)

References (18)
  • 1
    • 0029960055 scopus 로고    scopus 로고
    • TRANSFAC: A database on transcription factors and their DNA binding sites
    • Wingender, E., Dietze, P., Karas, H. and Knüppel, R. (1996). TRANSFAC: A database on transcription factors and their DNA binding sites. Nucleic Acids Res. 24, 238-241.
    • (1996) Nucleic Acids Res. , vol.24 , pp. 238-241
    • Wingender, E.1    Dietze, P.2    Karas, H.3    Knüppel, R.4
  • 2
    • 0034785443 scopus 로고    scopus 로고
    • Identifying regulatory networks by combinatorial analysis of promoter elements
    • Pilpel, Y., Sudarsanam, P. and Church, G. M. (2001). Identifying regulatory networks by combinatorial analysis of promoter elements. Nat. Genet. 29, 153-159.
    • (2001) Nat. Genet. , vol.29 , pp. 153-159
    • Pilpel, Y.1    Sudarsanam, P.2    Church, G.M.3
  • 3
    • 0034894539 scopus 로고    scopus 로고
    • Identifying target sites for cooperatively binding factors
    • GuhaThakurta, D. and Stormo, G. D. (2001). Identifying target sites for cooperatively binding factors. Bioinformatics 17, 608-621.
    • (2001) Bioinformatics , vol.17 , pp. 608-621
    • GuhaThakurta, D.1    Stormo, G.D.2
  • 5
    • 0032562789 scopus 로고    scopus 로고
    • Identification of regulatory regions which confer muscle-specific gene expression
    • Wasserman, W. W. and Fickett, J. W. (1998). Identification of regulatory regions which confer muscle-specific gene expression. J. Mol. Biol. 278, 167-181.
    • (1998) J. Mol. Biol. , vol.278 , pp. 167-181
    • Wasserman, W.W.1    Fickett, J.W.2
  • 6
    • 0032948782 scopus 로고    scopus 로고
    • Functional promoter modules can be detected by formal models independent of overall nucleotide sequence similarity
    • Klingenhoff, A., Frech, K., Quandt, K. and Werner, T. (1999). Functional promoter modules can be detected by formal models independent of overall nucleotide sequence similarity. Bioinformatics 15, 180-186.
    • (1999) Bioinformatics , vol.15 , pp. 180-186
    • Klingenhoff, A.1    Frech, K.2    Quandt, K.3    Werner, T.4
  • 7
    • 0042121118 scopus 로고    scopus 로고
    • Cluster-Buster: Finding dense clusters of motifs in DNA sequences
    • Frith, M. C., Li, M. C. and Weng, Z. (2003). Cluster-Buster: Finding dense clusters of motifs in DNA sequences. Nucleic Acids Res. 31, 3666-3668.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3666-3668
    • Frith, M.C.1    Li, M.C.2    Weng, Z.3
  • 8
    • 0036067977 scopus 로고    scopus 로고
    • Computation-based discovery of related transcriptional regulatory modules and motifs using an experimentally validated combinatorial model
    • Halfon, M. S., Grad, Y., Church, G. M. and Michelson A. M. (2002). Computation-based discovery of related transcriptional regulatory modules and motifs using an experimentally validated combinatorial model. Genome Res. 12, 1019-1028.
    • (2002) Genome Res. , vol.12 , pp. 1019-1028
    • Halfon, M.S.1    Grad, Y.2    Church, G.M.3    Michelson, A.M.4
  • 9
    • 0036365401 scopus 로고    scopus 로고
    • Automatic annotation of genomic regulatory sequences by searching for composite clusters
    • Kel-Margoulis, O. V., Ivanova T. G., Wingender, E. and Kel, A. E. (2002). Automatic annotation of genomic regulatory sequences by searching for composite clusters. Pac. Symp. Biocomp. 7, 187-198.
    • (2002) Pac. Symp. Biocomp. , vol.7 , pp. 187-198
    • Kel-Margoulis, O.V.1    Ivanova, T.G.2    Wingender, E.3    Kel, A.E.4
  • 10
    • 0036796540 scopus 로고    scopus 로고
    • Predicting transcription factor synergism
    • Hannenhalli, S. and Levy, S. (2002). Predicting transcription factor synergism. Nucleic Acids Res. 30, 4278-4284.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 4278-4284
    • Hannenhalli, S.1    Levy, S.2
  • 11
    • 0033394535 scopus 로고    scopus 로고
    • Genes regulated cooperatively by one or more transcription factors and their identification in whole eukaryotic genomes
    • Wagner, A. (1999). Genes regulated cooperatively by one or more transcription factors and their identification in whole eukaryotic genomes. Bioinformatics 99, 776-784.
    • (1999) Bioinformatics , vol.99 , pp. 776-784
    • Wagner, A.1
  • 12
    • 0030722935 scopus 로고    scopus 로고
    • Long human-mouse sequence alignments reveal novel regulatory elements: A reason to sequence the mouse genome
    • Hardison, R. C., Oeltjen, J. and Miller, W. (1997). Long human-mouse sequence alignments reveal novel regulatory elements: A reason to sequence the mouse genome. Genome Res. 8, 959-966.
    • (1997) Genome Res. , vol.8 , pp. 959-966
    • Hardison, R.C.1    Oeltjen, J.2    Miller, W.3
  • 14
    • 0034783060 scopus 로고    scopus 로고
    • Enrichment of regulatory signals in non-coding genomic sequences
    • Levy, S., Hannenhalli, S. and Workman, W. (2001). Enrichment of regulatory signals in non-coding genomic sequences. Bioinformatics 17, 871-877.
    • (2001) Bioinformatics , vol.17 , pp. 871-877
    • Levy, S.1    Hannenhalli, S.2    Workman, W.3
  • 15
    • 0036105591 scopus 로고    scopus 로고
    • rVista for comparative sequence-based discovery of functional transcription factor binding sites
    • Loots, G. G., Ovcharenko, I., Pachter, L., Dubchak, I. and Rubin, E. M. (2002). rVista for comparative sequence-based discovery of functional transcription factor binding sites. Genome Res. 12, 832-839.
    • (2002) Genome Res. , vol.12 , pp. 832-839
    • Loots, G.G.1    Ovcharenko, I.2    Pachter, L.3    Dubchak, I.4    Rubin, E.M.5
  • 16
    • 1242326890 scopus 로고    scopus 로고
    • CREME: A framework for identifying cis-regulatory modules in human-mouse conserved segments
    • Sharan, R., Ovcharenko, I., Ben-Hur, A. and Karp, R. M. (2003). CREME: A framework for identifying cis-regulatory modules in human-mouse conserved segments. Bioinformatics 19 Suppl. 1, i283-i291.
    • (2003) Bioinformatics , vol.19 , Issue.SUPPL. 1
    • Sharan, R.1    Ovcharenko, I.2    Ben-Hur, A.3    Karp, R.M.4
  • 18
    • 2942558697 scopus 로고    scopus 로고
    • On the power of profiles for transcription factor binding site detection
    • Article 7
    • Rahmann, S., Müller, T. and Vingron, M. (2003). On the power of profiles for transcription factor binding site detection. Stat. Appl. Genet. Mol. Biol. 2, Article 7. F
    • (2003) Stat. Appl. Genet. Mol. Biol. , vol.2
    • Rahmann, S.1    Müller, T.2    Vingron, M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.