메뉴 건너뛰기




Volumn 18, Issue 10, 2002, Pages 1374-1381

Finding motifs in the twilight zone

Author keywords

[No Author keywords available]

Indexed keywords

DNA FRAGMENT; TRANSCRIPTION FACTOR; DNA; DNA BINDING PROTEIN;

EID: 0036772332     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/18.10.1374     Document Type: Article
Times cited : (105)

References (27)
  • 1
    • 0002759539 scopus 로고
    • Unsupervised learning of multiple motifs in biopolymers using expectation maximization
    • Bailey, T and Elkan, C. (1995) Unsupervised learning of multiple motifs in biopolymers using expectation maximization. Machine Learning, 21, 51-80.
    • (1995) Machine Learning , vol.21 , pp. 51-80
    • Bailey, T.1    Elkan, C.2
  • 4
    • 0031878759 scopus 로고    scopus 로고
    • Approaches to the automatic discovery of patterns in biosequences
    • Brazma, A., Jonassen, I., Eidhammer I. and Gilbert, D. (1998) Approaches to the automatic discovery of patterns in biosequences. J. Comput. Biol., 5, 279-305.
    • (1998) J. Comput. Biol , vol.5 , pp. 279-305
    • Brazma, A.1    Jonassen, I.2    Eidhammer, I.3    Gilbert, D.4
  • 5
    • 0003533867 scopus 로고    scopus 로고
    • Search Algorithms for Biosequences Using Random Projection
    • Ph.D. thesis, University of Washington
    • Buhler, J. (2001) Search Algorithms for Biosequences Using Random Projection, Ph.D. thesis, University of Washington.
    • (2001)
    • Buhler, J.1
  • 7
    • 0029146491 scopus 로고
    • IdentIcation of common motifs in unaligned DNA sequences: Application to Escherichia coli Lrp regulon
    • Fraenkel, Y., Mandel, Y, Friedberg, D. and Margalit, H. (1995) IdentIcation of common motifs in unaligned DNA sequences: application to Escherichia coli Lrp regulon. Comp. Appl. Biosci., 11, 379-387.
    • (1995) Comp. Appl. Biosci , vol.11 , pp. 379-387
    • Fraenkel, Y.1    Mandel, Y.2    Friedberg, D.3    Margalit, H.4
  • 8
    • 0022358896 scopus 로고
    • Rigorous pattern-recognition methods for DNA sequences. Analysis of promoter sequences from Escherichia coli
    • Galas, D., Eggert, M. and Waterman, M. (1985) Rigorous pattern-recognition methods for DNA sequences. Analysis of promoter sequences from Escherichia coli. J. Mol. Biol., 186, 117-128.
    • (1985) J. Mol. Biol , vol.186 , pp. 117-128
    • Galas, D.1    Eggert, M.2    Waterman, M.3
  • 9
    • 0034141782 scopus 로고    scopus 로고
    • Prediction of transcription regulatory sites in Archaea by a comparative genomic approach
    • Gelfand, M., Koonin, E. and Mironov,A. (2000) Prediction of transcription regulatory sites in Archaea by a comparative genomic approach. Nucleic Acids Res., 28, 695-705.
    • (2000) Nucleic Acids Res , vol.28 , pp. 695-705
    • Gelfand, M.1    Koonin, E.2    Mironov, A.3
  • 10
  • 11
    • 0032826179 scopus 로고    scopus 로고
    • Identifying DNA and protein patterns with statistically significant alignments of multiple sequences
    • Hertz, G. and Stormo, G. (1999) Identifying DNA and protein patterns with statistically significant alignments of multiple sequences. Bioinformatics, 15, 563-577.
    • (1999) Bioinformatics , vol.15 , pp. 563-577
    • Hertz, G.1    Stormo, G.2
  • 12
    • 0036772507 scopus 로고    scopus 로고
    • Subtle motifs: Defining the limits of motif finding algorithms
    • Keich, U. and Pevzner, P. (2002) Subtle motifs: defining the limits of motif finding algorithms. Biainformatics, 18, 1382-1390.
    • (2002) Biainformatics , vol.18 , pp. 1382-1390
    • Keich, U.1    Pevzner, P.2
  • 13
    • 0027912333 scopus 로고
    • Detecting subtle sequence signals: A Gibbs sampling strategy for multiple alignment
    • Lawrence, C., Altschul, S., Boguski, M., Liu, J., Neuwald, A. and Wootton, J. (1993) Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment. Science, 262, 208-214.
    • (1993) Science , vol.262 , pp. 208-214
    • Lawrence, C.1    Altschul, S.2    Boguski, M.3    Liu, J.4    Neuwald, A.5    Wootton, J.6
  • 15
    • 0026729501 scopus 로고
    • WORDUP; an efficient algorithm for discovering statistically significant patterns in DNA sequences
    • Pesole, G., Prunella, N., Liuni, S., Attimonelli, M. and Saccone, C. (1992) WORDUP; an efficient algorithm for discovering statistically significant patterns in DNA sequences. Nucleic Acids Res., 20, 2871-2875.
    • (1992) Nucleic Acids Res , vol.20 , pp. 2871-2875
    • Pesole, G.1    Prunella, N.2    Liuni, S.3    Attimonelli, M.4    Saccone, C.5
  • 17
    • 0031684427 scopus 로고    scopus 로고
    • Combinatorial pattern discovery in biological sequences
    • Rigoutsos, I. and Floratos, A. (1998) Combinatorial pattern discovery in biological sequences. Bioinformatics, 14, 55-67.
    • (1998) Bioinformatics , vol.14 , pp. 55-67
    • Rigoutsos, I.1    Floratos, A.2
  • 18
    • 0000900670 scopus 로고    scopus 로고
    • Spelling approximate or repeated motifs using a suffix tree
    • 1380
    • Sagot, M. (1998) Spelling approximate or repeated motifs using a suffix tree. Lecture Notes in Computer Science, 1380, 111-127.
    • (1998) Lecture Notes in Computer Science , pp. 111-127
    • Sagot, M.1
  • 20
    • 0024385974 scopus 로고
    • Methods for discovering novel motifs in nucleic acid seqences
    • Staden, R. (1989) Methods for discovering novel motifs in nucleic acid seqences. Comput. Appl. Biosci., 5, 293-298.
    • (1989) Comput. Appl. Biosci , vol.5 , pp. 293-298
    • Staden, R.1
  • 21
    • 0034072450 scopus 로고    scopus 로고
    • DNA binding sites: Representation and discovery
    • Stormo, G. (2000) DNA binding sites: representation and discovery. Bioinformatics, 16, 16-23.
    • (2000) Bioinformatics , vol.16 , pp. 16-23
    • Stormo, G.1
  • 22
    • 0000133199 scopus 로고
    • Identifying protein-binding sites from unaligned DNA fragments
    • Stormo, G. and Hartzell III, G. (1989) Identifying protein-binding sites from unaligned DNA fragments. Proc. Natl Acad. Sci. USA, 86, 1183-1187.
    • (1989) Proc. Natl. Acad. Sci. USA , vol.86 , pp. 1183-1187
    • Stormo, G.1    Hartzell G. III2
  • 24
    • 0033289316 scopus 로고    scopus 로고
    • An exact method for finding short motifs in sequences with application to the Ribosome Binding Site problem
    • AAAI Press, Heidelberg, Germany
    • Tompa, M. (1999) An exact method for finding short motifs in sequences with application to the Ribosome Binding Site problem. In Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology. AAAI Press, Heidelberg, Germany, pp. 262-271.
    • (1999) Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology , pp. 262-271
    • Tompa, M.1
  • 25
    • 0032483307 scopus 로고    scopus 로고
    • Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies
    • van Helden, J., Andre, B. and Collado-Vides, J. (1998) Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies. J. Mol. Biol., 281, 827-842.
    • (1998) J. Mol. Biol , vol.281 , pp. 827-842
    • van Helden, J.1    Andre, B.2    Collado-Vides, J.3
  • 26
    • 0021665479 scopus 로고
    • Pattern recognition in several sequences: Consensus and alignment
    • Waterman, M., Arratia, R. and Galas, D. (1984) Pattern recognition in several sequences: consensus and alignment. Bull. Math. Biol., 46, 515-527.
    • (1984) Bull. Math. Biol , vol.46 , pp. 515-527
    • Waterman, M.1    Arratia, R.2    Galas, D.3
  • 27
    • 0029867505 scopus 로고    scopus 로고
    • Identification of functional elements in unaligned nucleic acid sequences
    • Wolfertstetter, F., Frech, K., Herrmann, G. and Werner, T. (1996) Identification of functional elements in unaligned nucleic acid sequences. Comput. Appl. Biosci., 12, 71-80.
    • (1996) Comput. Appl. Biosci , vol.12 , pp. 71-80
    • Wolfertstetter, F.1    Frech, K.2    Herrmann, G.3    Werner, T.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.