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Volumn 24, Issue 24, 2008, Pages 2839-2848

Faster exact Markovian probability functions for motif occurrences: A DFA-only approach

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Indexed keywords

AMINO ACID;

EID: 57249116908     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btn525     Document Type: Article
Times cited : (22)

References (20)
  • 1
    • 33846012075 scopus 로고    scopus 로고
    • Aho,A.V. et al, 2006 Compilers:, 2nd edn. Addison Wesley
    • Aho,A.V. et al. (2006) Compilers: Principles, Techniques, and Tools. 2nd edn. Addison Wesley.
    • Principles, Techniques, and Tools
  • 3
    • 34547662962 scopus 로고    scopus 로고
    • Trawler: De novo regulatory motif discovery pipeline for chromatin immunoprecipitation
    • Ettwiller,L. et al. (2007) Trawler: De novo regulatory motif discovery pipeline for chromatin immunoprecipitation. Nat. Methods 4, 563-565.
    • (2007) Nat. Methods , vol.4 , pp. 563-565
    • Ettwiller, L.1
  • 4
    • 20744449792 scopus 로고    scopus 로고
    • The design and implementation of FFTW3
    • Frigo,M. and Johnson,S.G. (2005) The design and implementation of FFTW3. Proc. IEEE, 93, 216-231.
    • (2005) Proc. IEEE , vol.93 , pp. 216-231
    • Frigo, M.1    Johnson, S.G.2
  • 6
    • 34848880455 scopus 로고    scopus 로고
    • Identification of DNA motifs implicated in maintenance of bacterial core genomes by predictive modeling
    • Halpern,D. et al. (2007) Identification of DNA motifs implicated in maintenance of bacterial core genomes by predictive modeling. PLoS Genet., 3, 1614-1621.
    • (2007) PLoS Genet , vol.3 , pp. 1614-1621
    • Halpern, D.1
  • 7
    • 0028181441 scopus 로고
    • Hidden Markov models in computational biology: Application to protein modeling
    • Krogh,A. et al. (1994) Hidden Markov models in computational biology: Application to protein modeling. J. Mol. Biol., 235 1501-1531.
    • (1994) J. Mol. Biol , vol.235 , pp. 1501-1531
    • Krogh, A.1
  • 8
    • 57249116593 scopus 로고    scopus 로고
    • Available at, last accessed date November 7, 2008
    • Leroy,X. et al. (2008) Available at http://www.ocaml.org (last accessed date November 7, 2008).
    • (2008)
    • Leroy, X.1
  • 9
    • 0344376513 scopus 로고    scopus 로고
    • Proteome analysis based on motif statistics
    • Nicodéme,P. et al. (2002) Proteome analysis based on motif statistics. Bioinformatics, 18, S161-S171.
    • (2002) Bioinformatics , vol.18
    • Nicodéme, P.1
  • 10
    • 34248358126 scopus 로고    scopus 로고
    • Nuel,G. (2006a) Effective P-value computations using finite Markov chain imbedding (FMCI): Application to local score and to pattern statistics. Algorithms Mol. Biol., 1. doi:10.1186/ 1748-7188-1-5.
    • Nuel,G. (2006a) Effective P-value computations using finite Markov chain imbedding (FMCI): Application to local score and to pattern statistics. Algorithms Mol. Biol., 1. doi:10.1186/ 1748-7188-1-5.
  • 11
    • 33750243061 scopus 로고    scopus 로고
    • Numerical solutions for pattern statistics on Markov chains
    • Nuel,G. (2006b) Numerical solutions for pattern statistics on Markov chains. Stat. Appl. Genet. Mol. Biol., 5.
    • (2006) Stat. Appl. Genet. Mol. Biol , vol.5
    • Nuel, G.1
  • 12
    • 43049111077 scopus 로고    scopus 로고
    • Pattern Markov chains: Optimal Markov chain embedding through deterministic finite automata
    • Nuel,G. (2007) Pattern Markov chains: Optimal Markov chain embedding through deterministic finite automata. J. Appl. Prob., 45, 226-243.
    • (2007) J. Appl. Prob , vol.45 , pp. 226-243
    • Nuel, G.1
  • 13
    • 57249115406 scopus 로고    scopus 로고
    • Available at, last accessed date November 7, 2008
    • Nuel,G. et al. (2008) Available at http://stat.genopole.cnrs.fr/ spatt (last accessed date November 7, 2008).
    • (2008)
    • Nuel, G.1
  • 14
    • 0004161838 scopus 로고    scopus 로고
    • in C. Cambridge University Press, Cambridge
    • Press,W.H. et al. (2002) Numerical Recipes in C. Cambridge University Press, Cambridge.
    • (2002) Numerical Recipes
    • Press, W.H.1
  • 15
    • 57249115407 scopus 로고    scopus 로고
    • Available at, last accessed date November 7, 2008
    • Ribeca,P. (2008) Available at http://www.paoloribeca.net/software/ PATRONUS (last accessed date November 7, 2008).
    • (2008)
    • Ribeca, P.1
  • 17
    • 34848816094 scopus 로고    scopus 로고
    • Statistical tests to compare motif count exceptionalities
    • Robin,S. et al. (2007) Statistical tests to compare motif count exceptionalities. BMC Bioinformatics, 8.
    • (2007) BMC Bioinformatics , vol.8
    • Robin, S.1
  • 18
    • 33644873683 scopus 로고    scopus 로고
    • The YEASTRACT database: A tool for the analysis of transcription regulatory associations in Saccharomices cerevisiae
    • Available at, last accessed date November 7, 2008
    • Teixeira,M.C. et al. (2006) The YEASTRACT database: A tool for the analysis of transcription regulatory associations in Saccharomices cerevisiae. Nucleic Acids Res., 34, D444-D451. Available at http://www.yeastract.com (last accessed date November 7, 2008).
    • (2006) Nucleic Acids Res , vol.34
    • Teixeira, M.C.1
  • 19
    • 34547541521 scopus 로고    scopus 로고
    • Chromosomal periodicity of evolutionarily conserved gene pairs
    • Wright,M.A. et al. (2007) Chromosomal periodicity of evolutionarily conserved gene pairs. Proc. Natl Acad. Sci. USA, 104, 10559-10564.
    • (2007) Proc. Natl Acad. Sci. USA , vol.104 , pp. 10559-10564
    • Wright, M.A.1
  • 20
    • 34047159557 scopus 로고    scopus 로고
    • Computing exact P-values for DNA motifs
    • Zhang,J. et al. (2007) Computing exact P-values for DNA motifs. Bioinformatics, 23, 531-537.
    • (2007) Bioinformatics , vol.23 , pp. 531-537
    • Zhang, J.1


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