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Effective p-value computations using Finite Markov Chain Imbedding (FMCI): application to local score and to pattern statistics.

Nuel G.

Algorithms Mol Biol. 2006 Apr 7;1(1):5.PMID: 16722531 [PubMed]Free PMC ArticleFree textRelated citations

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

Ribeca P, Raineri E.

Bioinformatics. 2008 Dec 15;24(24):2839-48. Epub 2008 Oct 9.PMID: 18845582 [PubMed - indexed for MEDLINE]Free ArticleRelated citations

Use of runs statistics for pattern recognition in genomic DNA sequences.

Cheung LW.

J Comput Biol. 2004;11(1):107-24.PMID: 15072691 [PubMed - indexed for MEDLINE]Related citations

Exact distribution of a pattern in a set of random sequences generated by a Markov source: applications to biological data.

Nuel G, Regad L, Martin J, Camproux AC.

Algorithms Mol Biol. 2010 Jan 26;5:15.PMID: 20205909 [PubMed]Free PMC ArticleFree textRelated citations

LD-SPatt: large deviations statistics for patterns on Markov chains.

Nuel G.

J Comput Biol. 2004;11(6):1023-33.PMID: 15662195 [PubMed - indexed for MEDLINE]Related citations

Fast model-based protein homology detection without alignment.

Hochreiter S, Heusel M, Obermayer K.

Bioinformatics. 2007 Jul 15;23(14):1728-36. Epub 2007 May 8.PMID: 17488755 [PubMed - indexed for MEDLINE]Free ArticleRelated citations

Efficient exact motif discovery.

Marschall T, Rahmann S.

Bioinformatics. 2009 Jun 15;25(12):i356-64.PMID: 19478010 [PubMed - indexed for MEDLINE]Free PMC ArticleFree textRelated citations

Pattern statistics on Markov chains and sensitivity to parameter estimation.

Nuel G.

Algorithms Mol Biol. 2006 Oct 17;1:17.PMID: 17044916 [PubMed]Free PMC ArticleFree textRelated citations

Error statistics of hidden Markov model and hidden Boltzmann model results.

Newberg LA.

BMC Bioinformatics. 2009 Jul 9;10:212.PMID: 19589158 [PubMed - indexed for MEDLINE]Free PMC ArticleFree textRelated citations

Local sequence alignments statistics: deviations from Gumbel statistics in the rare-event tail.

Wolfsheimer S, Burghardt B, Hartmann AK.

Algorithms Mol Biol. 2007 Jul 11;2:9.PMID: 17625018 [PubMed]Free PMC ArticleFree textRelated citations

Counting of oligomers in sequences generated by markov chains for DNA motif discovery.

Shan G, Zheng WM.

J Bioinform Comput Biol. 2009 Feb;7(1):39-54.PMID: 19226659 [PubMed - indexed for MEDLINE]Related citations

Efficient representation and P-value computation for high-order Markov motifs.

da Fonseca PG, Guimarães KS, Sagot MF.

Bioinformatics. 2008 Aug 15;24(16):i160-6.PMID: 18689819 [PubMed - indexed for MEDLINE]Free ArticleRelated citations

The exact joint distribution of the sum of heads and apparent size statistics of a "tandem repeats finder" algorithm.

Martin DE.

Bull Math Biol. 2006 Nov;68(8):2353-64. Epub 2006 Aug 22.PMID: 16924430 [PubMed - indexed for MEDLINE]Related citations

H-tuple approach to evaluate statistical significance of biological sequence comparison with gaps.

Fayyaz movaghar A, Mercier S, Ferré L.

Stat Appl Genet Mol Biol. 2007;6:Article 22. Epub 2007 Aug 25.PMID: 17764441 [PubMed - indexed for MEDLINE]Free ArticleRelated citations

Estimation of interindividual pharmacokinetic variability factor for inhaled volatile organic chemicals using a probability-bounds approach.

Nong A, Krishnan K.

Regul Toxicol Pharmacol. 2007 Jun;48(1):93-101. Epub 2007 Feb 4.PMID: 17367907 [PubMed - indexed for MEDLINE]Related citations

A general and efficient method for estimating continuous IBD functions for use in genome scans for QTL.

Besnier F, Carlborg O.

BMC Bioinformatics. 2007 Nov 13;8:440.PMID: 17999749 [PubMed - indexed for MEDLINE]Free PMC ArticleFree textRelated citations

Numerical solutions for patterns statistics on Markov chains.

Nuel G.

Stat Appl Genet Mol Biol. 2006;5:Article26. Epub 2006 Oct 17.PMID: 17049037 [PubMed - indexed for MEDLINE]Free ArticleRelated citations

Toward realistic and practical ideal observer (IO) estimation for the optimization of medical imaging systems.

He X, Caffo BS, Frey EC.

IEEE Trans Med Imaging. 2008 Oct;27(10):1535-43.PMID: 18815105 [PubMed - indexed for MEDLINE]Free PMC ArticleFree textRelated citations

An efficient, versatile and scalable pattern growth approach to mine frequent patterns in unaligned protein sequences.

Ye K, Kosters WA, Ijzerman AP.

Bioinformatics. 2007 Mar 15;23(6):687-93. Epub 2007 Jan 19.PMID: 17237070 [PubMed - indexed for MEDLINE]Free ArticleRelated citations

Randomized algorithms for the low-rank approximation of matrices.

Liberty E, Woolfe F, Martinsson PG, Rokhlin V, Tygert M.

Proc Natl Acad Sci U S A. 2007 Dec 18;104(51):20167-72. Epub 2007 Dec 4.PMID: 18056803 [PubMed]Free PMC ArticleFree textRelated citations