메뉴 건너뛰기




Volumn 15, Issue 12, 1999, Pages 987-993

Modeling and predicting transcriptional units of Escherichia coli genes using hidden Markov models

Author keywords

[No Author keywords available]

Indexed keywords

RIBOSOME DNA;

EID: 0033506881     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/15.12.987     Document Type: Article
Times cited : (92)

References (21)
  • 1
    • 0026027218 scopus 로고
    • A consensus motif common to all rho-dependent prokaryotic transcription terminators
    • Alifano, P., Rivellini, F., Limauro, D., Bruni, C.B. and Carlomagno, M.S. (1991) A consensus motif common to all rho-dependent prokaryotic transcription terminators. Cell, 64, 553-563.
    • (1991) Cell , vol.64 , pp. 553-563
    • Alifano, P.1    Rivellini, F.2    Limauro, D.3    Bruni, C.B.4    Carlomagno, M.S.5
  • 3
    • 0000241874 scopus 로고
    • GENEMARK: Parallel gene recognition for both DNA strands
    • Borodovsky, M. and McIninch, J.D. (1993) GENEMARK: Parallel gene recognition for both DNA strands. Comput. Chem., 17, 123-133.
    • (1993) Comput. Chem. , vol.17 , pp. 123-133
    • Borodovsky, M.1    McIninch, J.D.2
  • 4
    • 0023425487 scopus 로고
    • Promoter recognition and promoter strength in the Escherichia coli system
    • Brunner, M. and Bujard, H. (1987) Promoter recognition and promoter strength in the Escherichia coli system. EMBO J., 6, 3139-3144.
    • (1987) EMBO J. , vol.6 , pp. 3139-3144
    • Brunner, M.1    Bujard, H.2
  • 5
    • 0031586003 scopus 로고    scopus 로고
    • Prediction of complete gene structures in human genomic DNA
    • Burge, C. and Karlin, S. (1997) Prediction of complete gene structures in human genomic DNA. J. Mol. Biol., 268, 78-94.
    • (1997) J. Mol. Biol. , vol.268 , pp. 78-94
    • Burge, C.1    Karlin, S.2
  • 6
    • 0025663103 scopus 로고
    • Prediction of rho-independent Escherichia coli transcription terminators: A statistical analysis of their RNA stem-loop structures
    • Carafa, Y.d' A., Brody, E. and Thermes, C. (1990) Prediction of rho-independent Escherichia coli transcription terminators: a statistical analysis of their RNA stem-loop structures. J. Mol. Biol., 216, 835-858.
    • (1990) J. Mol. Biol. , vol.216 , pp. 835-858
    • Carafa, Y.D'A.1    Brody, E.2    Thermes, C.3
  • 7
    • 0031973704 scopus 로고    scopus 로고
    • Bacterial transcript imaging by hybridization of total RNA to oligonucleotide arrrays
    • de Saizieu, A., Certa, U., Warrington, J., Gray, C., Keck, W. and Mous, J. (1998) Bacterial transcript imaging by hybridization of total RNA to oligonucleotide arrrays. Nat. Biotechnol., 16, 45-48.
    • (1998) Nat. Biotechnol. , vol.16 , pp. 45-48
    • De Saizieu, A.1    Certa, U.2    Warrington, J.3    Gray, C.4    Keck, W.5    Mous, J.6
  • 8
    • 0032526322 scopus 로고    scopus 로고
    • Combining diverse evidence for gene recognition in completely sequenced bacterial genomes
    • Frishman, D., Mironov, A., Mewes, H.-W. and Gelfand, M. (1998) Combining diverse evidence for gene recognition in completely sequenced bacterial genomes. Nucleic Acids Res., 26, 2941-2947.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 2941-2947
    • Frishman, D.1    Mironov, A.2    Mewes, H.-W.3    Gelfand, M.4
  • 9
    • 0032415865 scopus 로고    scopus 로고
    • How to intepret an anonymous bacterial genome: Machine learning approach to gene identification
    • Hayes, W.S. and Borodovsky, M. (1998) How to intepret an anonymous bacterial genome: machine learning approach to gene identification. Genome Res., 8, 1154-1171.
    • (1998) Genome Res. , vol.8 , pp. 1154-1171
    • Hayes, W.S.1    Borodovsky, M.2
  • 10
    • 0028928174 scopus 로고
    • Comprehensive study on iterative algorithms of multiple sequence alignment
    • Hirosawa, M., Totoki, Y., Hoshida, M. and Ishikawa, M. (1995) Comprehensive study on iterative algorithms of multiple sequence alignment. Comput. Applic. Biosci., 11, 13-18.
    • (1995) Comput. Applic. Biosci. , vol.11 , pp. 13-18
    • Hirosawa, M.1    Totoki, Y.2    Hoshida, M.3    Ishikawa, M.4
  • 11
    • 77956964275 scopus 로고    scopus 로고
    • An introduction to hidden Markov models for biological sequences
    • Salzberg, S.L., Searls, D.B. and Kasif, S. (eds), Elsevier, Amsterdam
    • Krogh, A. (1998) An introduction to hidden Markov models for biological sequences. In Salzberg, S.L., Searls, D.B. and Kasif, S. (eds), Computational Methods in Molecular Biology Elsevier, Amsterdam, pp. 45-63.
    • (1998) Computational Methods in Molecular Biology , pp. 45-63
    • Krogh, A.1
  • 12
    • 0027944605 scopus 로고
    • A hidden Markov model that finds genes in E. coli DNA
    • Krogh, A., Mian, I.S. and Haussler, D. (1994) A hidden Markov model that finds genes in E. coli DNA. Nucleic Acids Res., 22, 4768-4778.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4768-4778
    • Krogh, A.1    Mian, I.S.2    Haussler, D.3
  • 13
    • 0030805979 scopus 로고    scopus 로고
    • Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12
    • Link, A.J., Robison, K. and Church, G.M. (1997) Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12. Electrophoresis, 18, 1259-1313.
    • (1997) Electrophoresis , vol.18 , pp. 1259-1313
    • Link, A.J.1    Robison, K.2    Church, G.M.3
  • 14
    • 0032519353 scopus 로고    scopus 로고
    • GeneMark.Hmm: New solutions for gene finding
    • Lukashin, A.V. and Borodovsky, M. (1998) GeneMark.hmm: new solutions for gene finding. Nucleic Acids Res., 26, 1107-1115.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 1107-1115
    • Lukashin, A.V.1    Borodovsky, M.2
  • 15
    • 0030686456 scopus 로고    scopus 로고
    • Noncanonical sequence elements in the promoter structure. Cluster analysis of promoters recognized by Escherichia coli RNA polymerase
    • Ozoline, O.N., Deev, A.A. and Arkhipova, M.V. (1997) Noncanonical sequence elements in the promoter structure. Cluster analysis of promoters recognized by Escherichia coli RNA polymerase. Nucleic Acids Res., 25, 4703-4709.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 4703-4709
    • Ozoline, O.N.1    Deev, A.A.2    Arkhipova, M.V.3
  • 16
    • 0024610919 scopus 로고
    • A tutorial on hidden Markov models and selected applications in speech recognition
    • Rabiner, L.R. (1989) A tutorial on hidden Markov models and selected applications in speech recognition. Proc. IEEE, 77, 257-287.
    • (1989) Proc. IEEE , vol.77 , pp. 257-287
    • Rabiner, L.R.1
  • 17
    • 0032518163 scopus 로고    scopus 로고
    • Microbial gene identification using interpolated Markov models
    • Salzberg, S.L., Delcher, A., Kasif, S. and White, O. (1998) Microbial gene identification using interpolated Markov models. Nucleic Acids Res., 26, 544-548.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 544-548
    • Salzberg, S.L.1    Delcher, A.2    Kasif, S.3    White, O.4
  • 18
    • 0025273345 scopus 로고
    • Finding protein coding regions in genomic sequences
    • Staden, R. (1990) Finding protein coding regions in genomic sequences. Methods Enzymol., 183, 163-180.
    • (1990) Methods Enzymol. , vol.183 , pp. 163-180
    • Staden, R.1
  • 19
    • 0030347274 scopus 로고    scopus 로고
    • Gene recognition in cyanobacterium genomic sequence data using the hidden Markov model
    • Yada, T. and Hirosawa, M. (1996) Gene recognition in cyanobacterium genomic sequence data using the hidden Markov model. Intell. Syst. Mol. Biol., 4, 252-260.
    • (1996) Intell. Syst. Mol. Biol. , vol.4 , pp. 252-260
    • Yada, T.1    Hirosawa, M.2
  • 20
    • 0030628305 scopus 로고    scopus 로고
    • Functional prediction of B. subtilis genes from their regulatory sequences
    • Yada, T., Totoki, Y., Ishii, T. and Nakai, K. (1997) Functional prediction of B. subtilis genes from their regulatory sequences. Intell. Syst. Mol. Biol., 5, 354-357.
    • (1997) Intell. Syst. Mol. Biol. , vol.5 , pp. 354-357
    • Yada, T.1    Totoki, Y.2    Ishii, T.3    Nakai, K.4
  • 21
    • 0024477261 scopus 로고
    • On finding all suboptimal foldings of an RNA molecule
    • Zuker, M. (1989) On finding all suboptimal foldings of an RNA molecule. Science, 244, 48-52.
    • (1989) Science , vol.244 , pp. 48-52
    • Zuker, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.