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Volumn 5251 LNBI, Issue , 2008, Pages 306-317

Fast and adaptive variable order Markov chain construction

Author keywords

[No Author keywords available]

Indexed keywords

BIOINFORMATICS; DEFORMATION; PARALLEL PROCESSING SYSTEMS; TECHNICAL PRESENTATIONS; TREES (MATHEMATICS);

EID: 56649105047     PISSN: 03029743     EISSN: 16113349     Source Type: Book Series    
DOI: 10.1007/978-3-540-87361-7_26     Document Type: Conference Paper
Times cited : (18)

References (27)
  • 2
    • 0030282113 scopus 로고    scopus 로고
    • The power of amnesia: Learning probabilistic automata with variable memory length
    • Ron, D., Singer, Y., Tishby, N.: The power of amnesia: Learning probabilistic automata with variable memory length. Machine Learning 25, 117-149 (1996)
    • (1996) Machine Learning , vol.25 , pp. 117-149
    • Ron, D.1    Singer, Y.2    Tishby, N.3
  • 3
    • 20744440509 scopus 로고    scopus 로고
    • Identification of transcription factor binding sites with variable-order Bayesian networks
    • Ben-Gal, I., Shani, A., Gohr, A., Grau, J., Arviv, S., Shmilovici, A., Posch, S., Grosse, L: Identification of transcription factor binding sites with variable-order Bayesian networks. Bioinformatics 21(11), 2657-2666 (2005)
    • (2005) Bioinformatics , vol.21 , Issue.11 , pp. 2657-2666
    • Ben-Gal, I.1    Shani, A.2    Gohr, A.3    Grau, J.4    Arviv, S.5    Shmilovici, A.6    Posch, S.7    Grosse, L.8
  • 4
    • 23844463779 scopus 로고    scopus 로고
    • Finding short DNA motifs using permuted Markov models
    • Zhao, X., Huang, H., Speed, T.P.: Finding short DNA motifs using permuted Markov models. J. Comput. Biol. 12(6), 894-906 (2005)
    • (2005) J. Comput. Biol , vol.12 , Issue.6 , pp. 894-906
    • Zhao, X.1    Huang, H.2    Speed, T.P.3
  • 5
    • 33746333850 scopus 로고    scopus 로고
    • SVM-based detection of distant protein structural relationships using pairwise probabilistic suffix trees
    • Ogul, H., Mumcuoglu, E.U.: SVM-based detection of distant protein structural relationships using pairwise probabilistic suffix trees. Comput. Biol. Chem. 30(4), 292-299 (2006)
    • (2006) Comput. Biol. Chem , vol.30 , Issue.4 , pp. 292-299
    • Ogul, H.1    Mumcuoglu, E.U.2
  • 6
    • 33644872947 scopus 로고    scopus 로고
    • Bayesian classifiers for detecting HGT using fixed and variable order markov models of genomic signatures
    • Dalevi, D., Dubhashi, D., Hermansson, M.: Bayesian classifiers for detecting HGT using fixed and variable order markov models of genomic signatures. Bioinformatics 22(5), 517-522 (2006)
    • (2006) Bioinformatics , vol.22 , Issue.5 , pp. 517-522
    • Dalevi, D.1    Dubhashi, D.2    Hermansson, M.3
  • 7
    • 0034777112 scopus 로고    scopus 로고
    • Markovian domain fingerprinting: Statistical segmentation of protein sequences
    • Bejerano, G., Seldin, Y., Margalit, H., Tishby, N.: Markovian domain fingerprinting: statistical segmentation of protein sequences. Bioinformatics 17(10), 927-934 (2001)
    • (2001) Bioinformatics , vol.17 , Issue.10 , pp. 927-934
    • Bejerano, G.1    Seldin, Y.2    Margalit, H.3    Tishby, N.4
  • 9
    • 0035109647 scopus 로고    scopus 로고
    • Variations on probabilistic suffix trees: Statistical modeling and prediction of protein families
    • Bejerano, G., Yona, G.: Variations on probabilistic suffix trees: statistical modeling and prediction of protein families. Bioinformatics 17(1), 23-43 (2001)
    • (2001) Bioinformatics , vol.17 , Issue.1 , pp. 23-43
    • Bejerano, G.1    Yona, G.2
  • 10
    • 35448995310 scopus 로고    scopus 로고
    • Posch, S., Grau, J., Gohr, A., Ben-Gal, L, Kel, A.E., Grosse, L: Recognition of cis-regulatory elements with vombat. J. Bioinform. Comput. Biol. 5(2B), 561-577 (2007)
    • Posch, S., Grau, J., Gohr, A., Ben-Gal, L, Kel, A.E., Grosse, L: Recognition of cis-regulatory elements with vombat. J. Bioinform. Comput. Biol. 5(2B), 561-577 (2007)
  • 11
    • 0033677349 scopus 로고    scopus 로고
    • Optimal amnesic probabilistic automata or how to learn and classify proteins in linear time and space
    • Apostolico, A., Bejerano, G.: Optimal amnesic probabilistic automata or how to learn and classify proteins in linear time and space. J. Comput. Biol. 7(3-4), 381-393 (2000)
    • (2000) J. Comput. Biol , vol.7 , Issue.3-4 , pp. 381-393
    • Apostolico, A.1    Bejerano, G.2
  • 12
    • 1842455195 scopus 로고    scopus 로고
    • Algorithms for variable length Markov chain modeling
    • Bejerano, G.: Algorithms for variable length Markov chain modeling. Bioinformatics 20(5), 788-789 (2004)
    • (2004) Bioinformatics , vol.20 , Issue.5 , pp. 788-789
    • Bejerano, G.1
  • 13
    • 33745633368 scopus 로고    scopus 로고
    • A generalization of the PST algorithm: Modeling the sparse nature of protein sequences
    • Leonardi, F.G.: A generalization of the PST algorithm: modeling the sparse nature of protein sequences. Bioinformatics 22(11), 1302-1307 (2006)
    • (2006) Bioinformatics , vol.22 , Issue.11 , pp. 1302-1307
    • Leonardi, F.G.1
  • 14
    • 0033227559 scopus 로고    scopus 로고
    • Reducing the space requirement of suffix trees
    • Kurtz, S.: Reducing the space requirement of suffix trees. Software Pract. Exper. 29(13), 1149-1171 (1999)
    • (1999) Software Pract. Exper , vol.29 , Issue.13 , pp. 1149-1171
    • Kurtz, S.1
  • 15
    • 0042695715 scopus 로고    scopus 로고
    • Efficient implementation of lazy suffix trees
    • Giegerich, R., Kurtz, S., Stoye, J.: Efficient implementation of lazy suffix trees. Software Pract. Exper. 33(11), 1035-1049 (2003)
    • (2003) Software Pract. Exper , vol.33 , Issue.11 , pp. 1035-1049
    • Giegerich, R.1    Kurtz, S.2    Stoye, J.3
  • 16
    • 0027681165 scopus 로고
    • Suffix arrays: A new method for on-line string searches
    • Manber, U., Myers, E.: Suffix arrays: A new method for on-line string searches. SIAM J. Comput. 22(5), 935-948 (1993)
    • (1993) SIAM J. Comput , vol.22 , Issue.5 , pp. 935-948
    • Manber, U.1    Myers, E.2
  • 19
    • 0039530516 scopus 로고    scopus 로고
    • Variable length Markov chains
    • Bühlmann, P., Wyner, A.J.: Variable length Markov chains. Ann. Statist. 27(2), 480-513 (1999)
    • (1999) Ann. Statist , vol.27 , Issue.2 , pp. 480-513
    • Bühlmann, P.1    Wyner, A.J.2
  • 20
    • 33846239011 scopus 로고    scopus 로고
    • Maaß, M.G.: Computing suffix links for suffix trees and arrays. inf. Process. Lett. 101(6), 250-254 (2007)
    • Maaß, M.G.: Computing suffix links for suffix trees and arrays. inf. Process. Lett. 101(6), 250-254 (2007)
  • 21
    • 21044442250 scopus 로고    scopus 로고
    • Engineering a lightweight suffix array construction algorithm
    • Manzini, G., Ferragina, P.: Engineering a lightweight suffix array construction algorithm. Algorithmica 40(1), 33-50 (2004)
    • (2004) Algorithmica , vol.40 , Issue.1 , pp. 33-50
    • Manzini, G.1    Ferragina, P.2
  • 22
    • 0029542348 scopus 로고
    • A comparison of imperative and purely functional suffix tree constructions
    • Giegerich, R., Kurtz, S.: A comparison of imperative and purely functional suffix tree constructions. Sci. Comput. Program. 25, 187-218 (1995)
    • (1995) Sci. Comput. Program , vol.25 , pp. 187-218
    • Giegerich, R.1    Kurtz, S.2
  • 25
    • 38549097071 scopus 로고    scopus 로고
    • The Universal Protein Resource (UniProt)
    • The UniProt Consortium
    • The UniProt Consortium: The Universal Protein Resource (UniProt). Nucl. Acids Res. 36(suppl.l), D190-195 (2008)
    • (2008) Nucl. Acids Res , vol.36 , Issue.SUPPL.L
  • 26
    • 39549090389 scopus 로고    scopus 로고
    • SeqAn an efficient, generic C++ library for sequence analysis
    • Döling, A., Weese, D., Rausch, T., Reinert, K.: SeqAn an efficient, generic C++ library for sequence analysis. BMC Bioinformatics 9, 11 (2008)
    • (2008) BMC Bioinformatics , vol.9 , pp. 11
    • Döling, A.1    Weese, D.2    Rausch, T.3    Reinert, K.4
  • 27
    • 39449128278 scopus 로고    scopus 로고
    • The generalised k-Truncated Suffix Tree for time- and space- efficient searches in multiple DNA or protein sequences, int
    • Schulz, M.H., Bauer, S., Robinson, P.N.: The generalised k-Truncated Suffix Tree for time- and space- efficient searches in multiple DNA or protein sequences, int. J. Bioinform. Res. Appl. 4(1), 81-95 (2008)
    • (2008) J. Bioinform. Res. Appl , vol.4 , Issue.1 , pp. 81-95
    • Schulz, M.H.1    Bauer, S.2    Robinson, P.N.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.