-
1
-
-
0028685490
-
Fitting amixture model by expectation maximization to discover motifs in biopolymer
-
Altman,R.B. et al, eds, AAAI Press, pp
-
Bailey,T.L. and Elkan,C. (1994) Fitting amixture model by expectation maximization to discover motifs in biopolymer. In Altman,R.B. et al. (eds) Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology (ISMB), AAAI Press, pp. 28-36.
-
(1994)
Proceedings of the Second International Conference on Intelligent Systems for Molecular Biology (ISMB)
, pp. 28-36
-
-
Bailey, T.L.1
Elkan, C.2
-
2
-
-
37849021289
-
-
Boeva,V. et al. (2007) Exact P-value calculation for heterotypic clusters of regulatory motifs and its application in computational annotation of cis-regulatory modules. Algorithm Mol. Biol., 2 13.
-
Boeva,V. et al. (2007) Exact P-value calculation for heterotypic clusters of regulatory motifs and its application in computational annotation of cis-regulatory modules. Algorithm Mol. Biol., 2 13.
-
-
-
-
5
-
-
33744507263
-
The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
-
Ettwiller,L. et al. (2005) The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates. Genome Biol., 6, R104.
-
(2005)
Genome Biol
, vol.6
-
-
Ettwiller, L.1
-
6
-
-
53749093398
-
Seeder: Discriminative seeding DNA motif discovery
-
Fauteux,F. et al. (2008) Seeder: Discriminative seeding DNA motif discovery. Bioinformatics, 24, 2303-2307.
-
(2008)
Bioinformatics
, vol.24
, pp. 2303-2307
-
-
Fauteux, F.1
-
7
-
-
33747893656
-
MotifCut: Regulatory motifs finding with maximum density subgraphs
-
Fratkin,E. et al. (2006) MotifCut: Regulatory motifs finding with maximum density subgraphs. Bioinformatics, 22, e150-e157.
-
(2006)
Bioinformatics
, vol.22
-
-
Fratkin, E.1
-
8
-
-
44349109637
-
Eukaryotic transcription factor binding sites-modeling and integrative search methods
-
Hannenhalli,S. (2008) Eukaryotic transcription factor binding sites-modeling and integrative search methods. Bioinformatics, 24, 1325-1331.
-
(2008)
Bioinformatics
, vol.24
, pp. 1325-1331
-
-
Hannenhalli, S.1
-
9
-
-
33747044757
-
-
Li,N. and Tompa,M. (2006) Analysis of computational approaches for motif discovery. Algorithms Mol. Biol., 1, 8.
-
Li,N. and Tompa,M. (2006) Analysis of computational approaches for motif discovery. Algorithms Mol. Biol., 1, 8.
-
-
-
-
10
-
-
36448949063
-
Multiple pattern matching: A Markov chain approach
-
Lladser,M. et al. (2008) Multiple pattern matching: A Markov chain approach. J. Math. Biol., 56, 51-92.
-
(2008)
J. Math. Biol
, vol.56
, pp. 51-92
-
-
Lladser, M.1
-
11
-
-
45849126471
-
Probabilistic arithmetic automata and their application to pattern matching statistics
-
Ferragina,P. and Landau,G.M, eds, Proceedings of the 19th Annual Symposium on Combinatorial Pattern Matching CPM, of, Springer, Heidelberg, pp
-
Marschall,T. and Rahmann,S. (2008) Probabilistic arithmetic automata and their application to pattern matching statistics. In Ferragina,P. and Landau,G.M. (eds), Proceedings of the 19th Annual Symposium on Combinatorial Pattern Matching (CPM), Vol. 5029 of Lecture Notes in Computer Science, Springer, Heidelberg, pp. 95-106.
-
(2008)
Lecture Notes in Computer Science
, vol.5029
, pp. 95-106
-
-
Marschall, T.1
Rahmann, S.2
-
12
-
-
0037190356
-
Motif statistics
-
Nicodème,P. et al. (2002) Motif statistics. Theor. Comput. Sci., 287, 593-617.
-
(2002)
Theor. Comput. Sci
, vol.287
, pp. 593-617
-
-
Nicodème, P.1
-
13
-
-
43049111077
-
Pattern Markov chains: Optimal Markov chain embedding through deterministic finite automata
-
Nuel,G. (2008) Pattern Markov chains: Optimal Markov chain embedding through deterministic finite automata. J. Appl. Probab., 45, 226-243.
-
(2008)
J. Appl. Probab
, vol.45
, pp. 226-243
-
-
Nuel, G.1
-
14
-
-
3242884167
-
Weeder Web: Discovery of transcription factor binding sites in a set of sequences from co-regulated genes
-
Pavesi,G. et al. (2004) Weeder Web: Discovery of transcription factor binding sites in a set of sequences from co-regulated genes. Nucleic Acids Res., 32, W199-W203.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Pavesi, G.1
-
15
-
-
0000794292
-
A unifed approach to word occurrence probabilities
-
Régnier,M. (2000) A unifed approach to word occurrence probabilities. Discrete Appl. Math., 104, 259-280.
-
(2000)
Discrete Appl. Math
, vol.104
, pp. 259-280
-
-
Régnier, M.1
-
16
-
-
0034125366
-
Probabilistic and statistical properties of words: An overview
-
Reinert,G. et al. (2000) Probabilistic and statistical properties of words: An overview. J. Comput. Biol., 7, 1-46.
-
(2000)
J. Comput. Biol
, vol.7
, pp. 1-46
-
-
Reinert, G.1
-
18
-
-
34247618196
-
Improved compound Poisson approximation for the number of occurrences of multiple words in a stationary Markov chain
-
Roquain,E. and Schbath,S. (2007). Improved compound Poisson approximation for the number of occurrences of multiple words in a stationary Markov chain. Adv. Appl. Prob., 39, 128-140.
-
(2007)
Adv. Appl. Prob
, vol.39
, pp. 128-140
-
-
Roquain, E.1
Schbath, S.2
-
19
-
-
80053455778
-
Spelling approximate repeated or commonmotifs using a suffix tree
-
LATIN '98: Proceedings of the Third Latin American Symposium on Theoretical Informatics, Springer, London, UK, pp
-
Sagot,M.-F. (1998) Spelling approximate repeated or commonmotifs using a suffix tree. In LATIN '98: Proceedings of the Third Latin American Symposium on Theoretical Informatics, LNCS 1380, Springer, London, UK, pp. 374-390.
-
(1998)
LNCS
, vol.1380
, pp. 374-390
-
-
Sagot, M.-F.1
-
20
-
-
34247579156
-
A survey of motif discovery methods in an integrated framework
-
Sandve,G. and Drabløs,F. (2006). A survey of motif discovery methods in an integrated framework. Biol. Direct, 1, 11.
-
(2006)
Biol. Direct
, vol.1
, pp. 11
-
-
Sandve, G.1
Drabløs, F.2
-
21
-
-
34347339593
-
Improved benchmarks for computational motif discovery
-
Sandve,G. et al. (2007) Improved benchmarks for computational motif discovery. BMC Bioinformatics, 8, 193.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 193
-
-
Sandve, G.1
-
22
-
-
84996141000
-
Compound poisson approximation of word counts in DNA sequences
-
Schbath,S. (1995) Compound poisson approximation of word counts in DNA sequences. ESAIM: Prob. Stat., 1, 1-16.
-
(1995)
ESAIM: Prob. Stat
, vol.1
, pp. 1-16
-
-
Schbath, S.1
-
23
-
-
0042905768
-
YMF: A program for discovery of novel transcription factor binding sites by statistical overrepresentation
-
Sinha,S. and Tompa,M. (2003) YMF: A program for discovery of novel transcription factor binding sites by statistical overrepresentation. Nucleic Acids Res., 31, 3586-3588.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3586-3588
-
-
Sinha, S.1
Tompa, M.2
-
24
-
-
33846796002
-
Waiting times for clumps of patterns and for structured motifs in random sequences
-
Stefanov,V. et al. (2007) Waiting times for clumps of patterns and for structured motifs in random sequences. Discrete Appl. Math., 155, 868-880.
-
(2007)
Discrete Appl. Math
, vol.155
, pp. 868-880
-
-
Stefanov, V.1
-
25
-
-
21144439147
-
Assessing computational tools for the discovery of transcription factor binding sites
-
Tompa,M. et al. (2005) Assessing computational tools for the discovery of transcription factor binding sites. Nat. Biotechnol., 23, 137-144.
-
(2005)
Nat. Biotechnol
, vol.23
, pp. 137-144
-
-
Tompa, M.1
|