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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

A hierarchical model for estimating significance levels of non-parametric linkage statistics for large pedigrees.

Brock GN, Weeks DE, Sobel E, Feingold E.

Genet Epidemiol. 2007 Jul;31(5):417-30.PMID: 17508354 [PubMed - indexed for MEDLINE]Related citations

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

A heteroskedastic error covariance matrix estimator using a first-order conditional autoregressive Markov simulation for deriving asympotical efficient estimates from ecological sampled Anopheles arabiensis aquatic habitat covariates.

Jacob BG, Griffith DA, Muturi EJ, Caamano EX, Githure JI, Novak RJ.

Malar J. 2009 Sep 21;8:216.PMID: 19772590 [PubMed - indexed for MEDLINE]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

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

Composite likelihood estimation of demographic parameters.

Garrigan D.

BMC Genet. 2009 Nov 12;10:72.PMID: 19909534 [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

Parameter estimation for robust HMM analysis of ChIP-chip data.

Humburg P, Bulger D, Stone G.

BMC Bioinformatics. 2008 Aug 18;9:343.PMID: 18706106 [PubMed - indexed for MEDLINE]Free PMC ArticleFree textRelated citations

ML parameter estimation for Markov random fields with applications to Bayesian tomography.

Saquib SS, Bouman CA, Sauer K.

IEEE Trans Image Process. 1998;7(7):1029-44.PMID: 18276318 [PubMed]Related citations

Markov switching negative binomial models: an application to vehicle accident frequencies.

Malyshkina NV, Mannering FL, Tarko AP.

Accid Anal Prev. 2009 Mar;41(2):217-26. Epub 2008 Dec 4.PMID: 19245878 [PubMed - indexed for MEDLINE]Related citations

Pitfalls of the most commonly used models of context dependent substitution.

Lindsay H, Yap VB, Ying H, Huttley GA.

Biol Direct. 2008 Dec 16;3:52. Erratum in: Biol Direct. 2009;(4). doi: 10.1186/1745-6150-4-10. PMID: 19087239 [PubMed - indexed for MEDLINE]Free PMC ArticleFree textRelated citations

Inferring Markov chains: Bayesian estimation, model comparison, entropy rate, and out-of-class modeling.

Strelioff CC, Crutchfield JP, Hübler AW.

Phys Rev E Stat Nonlin Soft Matter Phys. 2007 Jul;76(1 Pt 1):011106. Epub 2007 Jul 12. Erratum in: Phys Rev E Stat Nonlin Soft Matter Phys. 2007 Jul;76(2 Pt 2):019902. PMID: 17677409 [PubMed - indexed for MEDLINE]Related 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

Efficient parameter estimation for spatio-temporal models of pattern formation: case study of Drosophila melanogaster.

Fomekong-Nanfack Y, Kaandorp JA, Blom J.

Bioinformatics. 2007 Dec 15;23(24):3356-63. Epub 2007 Sep 24.PMID: 17893088 [PubMed - indexed for MEDLINE]Free ArticleRelated citations

De novo search for non-coding RNA genes in the AT-rich genome of Dictyostelium discoideum: performance of Markov-dependent genome feature scoring.

Larsson P, Hinas A, Ardell DH, Kirsebom LA, Virtanen A, Söderbom F.

Genome Res. 2008 Jun;18(6):888-99. Epub 2008 Mar 17.PMID: 18347326 [PubMed - indexed for MEDLINE]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

Statistical scales of order in DNA.

Poland D.

Biophys Chem. 2009 May;141(2-3):203-13. Epub 2009 Feb 20.PMID: 19254822 [PubMed - indexed for MEDLINE]Related citations

Markov models for ion channels: versatility versus identifiability and speed.

Fink M, Noble D.

Philos Transact A Math Phys Eng Sci. 2009 Jun 13;367(1896):2161-79.PMID: 19414451 [PubMed - in process]Free ArticleRelated 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