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Results: 1 to 20 of 182

1.

PHAISTOS: a framework for Markov chain Monte Carlo simulation and inference of protein structure.

Boomsma W, Frellsen J, Harder T, Bottaro S, Johansson KE, Tian P, Stovgaard K, Andreetta C, Olsson S, Valentin JB, Antonov LD, Christensen AS, Borg M, Jensen JH, Lindorff-Larsen K, Ferkinghoff-Borg J, Hamelryck T.

J Comput Chem. 2013 Jul 15;34(19):1697-705. doi: 10.1002/jcc.23292. Epub 2013 Apr 26.

PMID:
23619610
[PubMed - indexed for MEDLINE]
2.

An example of complex modelling in dentistry using Markov chain Monte Carlo (MCMC) simulation.

Helfenstein U, Menghini G, Steiner M, Murati F.

Community Dent Health. 2002 Sep;19(3):152-60.

PMID:
12269461
[PubMed - indexed for MEDLINE]
3.

Markov chain Monte Carlo inference for Markov jump processes via the linear noise approximation.

Stathopoulos V, Girolami MA.

Philos Trans A Math Phys Eng Sci. 2012 Dec 31;371(1984):20110541. doi: 10.1098/rsta.2011.0541. Print 2013 Feb 13.

PMID:
23277599
[PubMed - indexed for MEDLINE]
4.

AWTY (are we there yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics.

Nylander JA, Wilgenbusch JC, Warren DL, Swofford DL.

Bioinformatics. 2008 Feb 15;24(4):581-3. Epub 2007 Aug 30.

PMID:
17766271
[PubMed - indexed for MEDLINE]
Free Article
5.

Computational toxicology of chloroform: reverse dosimetry using Bayesian inference, Markov chain Monte Carlo simulation, and human biomonitoring data.

Lyons MA, Yang RS, Mayeno AN, Reisfeld B.

Environ Health Perspect. 2008 Aug;116(8):1040-6. doi: 10.1289/ehp.11079. Erratum in: Environ Health Perspect. 2008 Aug;116(8):1046.

PMID:
18709138
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Phylogenetics, likelihood, evolution and complexity.

de Koning AP, Gu W, Castoe TA, Pollock DD.

Bioinformatics. 2012 Nov 15;28(22):2989-90. doi: 10.1093/bioinformatics/bts555. Epub 2012 Sep 12.

PMID:
22976081
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

GNU MCSim: Bayesian statistical inference for SBML-coded systems biology models.

Bois FY.

Bioinformatics. 2009 Jun 1;25(11):1453-4. doi: 10.1093/bioinformatics/btp162. Epub 2009 Mar 20.

PMID:
19304877
[PubMed - indexed for MEDLINE]
Free Article
8.

Phylogenetic inference via sequential Monte Carlo.

Bouchard-Côté A, Sankararaman S, Jordan MI.

Syst Biol. 2012 Jul;61(4):579-93. doi: 10.1093/sysbio/syr131. Epub 2012 Jan 4.

PMID:
22223445
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Mocapy++--a toolkit for inference and learning in dynamic Bayesian networks.

Paluszewski M, Hamelryck T.

BMC Bioinformatics. 2010 Mar 12;11:126. doi: 10.1186/1471-2105-11-126.

PMID:
20226024
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

PROFASI: A Monte Carlo simulation package for protein folding and aggregation.

Irbäck A, Mohanty S.

J Comput Chem. 2006 Oct;27(13):1548-55.

PMID:
16847934
[PubMed - indexed for MEDLINE]
11.

Biopolymer structure simulation and optimization via fragment regrowth Monte Carlo.

Zhang J, Kou SC, Liu JS.

J Chem Phys. 2007 Jun 14;126(22):225101.

PMID:
17581081
[PubMed - indexed for MEDLINE]
12.

MRBAYES: Bayesian inference of phylogenetic trees.

Huelsenbeck JP, Ronquist F.

Bioinformatics. 2001 Aug;17(8):754-5.

PMID:
11524383
[PubMed - indexed for MEDLINE]
Free Article
13.

HandAlign: Bayesian multiple sequence alignment, phylogeny and ancestral reconstruction.

Westesson O, Barquist L, Holmes I.

Bioinformatics. 2012 Apr 15;28(8):1170-1. doi: 10.1093/bioinformatics/bts058. Epub 2012 Jan 28.

PMID:
22285828
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Bayesian random local clocks, or one rate to rule them all.

Drummond AJ, Suchard MA.

BMC Biol. 2010 Aug 31;8:114. doi: 10.1186/1741-7007-8-114.

PMID:
20807414
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Bayesian probabilistic network modeling from multiple independent replicates.

Patton KL, John DJ, Norris JL.

BMC Bioinformatics. 2012 Jun 11;13 Suppl 9:S6. doi: 10.1186/1471-2105-13-S9-S6.

PMID:
22901091
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Bayesian models and Markov chain Monte Carlo methods for protein motifs with the secondary characteristics.

Xie J, Kim NK.

J Comput Biol. 2005 Sep;12(7):952-70. Review.

PMID:
16201915
[PubMed - indexed for MEDLINE]
17.

Fitting genetic models using Markov Chain Monte Carlo algorithms with BUGS.

van den Berg SM, Beem L, Boomsma DI.

Twin Res Hum Genet. 2006 Jun;9(3):334-42.

PMID:
16790144
[PubMed - indexed for MEDLINE]
18.

Probabilistic inference of transcription factor binding from multiple data sources.

Lähdesmäki H, Rust AG, Shmulevich I.

PLoS One. 2008 Mar 26;3(3):e1820. doi: 10.1371/journal.pone.0001820.

PMID:
18364997
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Use of Bayesian Markov Chain Monte Carlo methods to model cost-of-illness data.

Cooper NJ, Sutton AJ, Mugford M, Abrams KR.

Med Decis Making. 2003 Jan-Feb;23(1):38-53.

PMID:
12583454
[PubMed - indexed for MEDLINE]
20.

GSEVM v.2: MCMC software to analyze genetically structured environmental variance models.

Ibáñez-Escriche N, Garcia M, Sorensen D.

J Anim Breed Genet. 2010 Jun;127(3):249-51. doi: 10.1111/j.1439-0388.2009.00846.x.

PMID:
20536643
[PubMed - indexed for MEDLINE]

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