Literature DB >> 15698139

Replica-exchange Monte Carlo scheme for bayesian data analysis.

Michael Habeck1, Michael Nilges, Wolfgang Rieping.   

Abstract

We develop a sampling algorithm to explore the probability densities arising in Bayesian data analysis problems. Our algorithm is a multiparameter generalization of a replica-exchange Monte Carlo scheme. The strategy relies on gradual weighing of experimental data and on Tsallis generalized statistics. We demonstrate the effectiveness of the method on nuclear magnetic resonance data for a folded protein.

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Year:  2005        PMID: 15698139     DOI: 10.1103/PhysRevLett.94.018105

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  20 in total

1.  An information theoretic approach to macromolecular modeling: I. Sequence alignments.

Authors:  Tiba Aynechi; Irwin D Kuntz
Journal:  Biophys J       Date:  2005-11       Impact factor: 4.033

2.  An information theoretic approach to macromolecular modeling: II. Force fields.

Authors:  Tiba Aynechi; Irwin D Kuntz
Journal:  Biophys J       Date:  2005-11       Impact factor: 4.033

3.  Weighting of experimental evidence in macromolecular structure determination.

Authors:  Michael Habeck; Wolfgang Rieping; Michael Nilges
Journal:  Proc Natl Acad Sci U S A       Date:  2006-01-30       Impact factor: 11.205

4.  A unifying probabilistic framework for analyzing residual dipolar couplings.

Authors:  Michael Habeck; Michael Nilges; Wolfgang Rieping
Journal:  J Biomol NMR       Date:  2007-12-20       Impact factor: 2.835

5.  Prediction of Protein Loop Conformations using the AGBNP Implicit Solvent Model and Torsion Angle Sampling.

Authors:  Anthony K Felts; Emilio Gallicchio; Dmitriy Chekmarev; Kristina A Paris; Richard A Friesner; Ronald M Levy
Journal:  J Chem Theory Comput       Date:  2008       Impact factor: 6.006

6.  NMR structural inference of symmetric homo-oligomers.

Authors:  Himanshu Chandola; Anthony K Yan; Shobha Potluri; Bruce R Donald; Chris Bailey-Kellogg
Journal:  J Comput Biol       Date:  2011-06-30       Impact factor: 1.479

7.  Determining protein structures by combining semireliable data with atomistic physical models by Bayesian inference.

Authors:  Justin L MacCallum; Alberto Perez; Ken A Dill
Journal:  Proc Natl Acad Sci U S A       Date:  2015-05-18       Impact factor: 11.205

8.  Replica exchanging self-guided Langevin dynamics for efficient and accurate conformational sampling.

Authors:  Xiongwu Wu; Milan Hodoscek; Bernard R Brooks
Journal:  J Chem Phys       Date:  2012-07-28       Impact factor: 3.488

9.  White matter pathology isolates the hippocampal formation in Alzheimer's disease.

Authors:  D H Salat; D S Tuch; A J W van der Kouwe; D N Greve; V Pappu; S Y Lee; N D Hevelone; A K Zaleta; J H Growdon; S Corkin; B Fischl; H D Rosas
Journal:  Neurobiol Aging       Date:  2010-02       Impact factor: 4.673

10.  Modulation of p53 binding to MDM2: computational studies reveal important roles of Tyr100.

Authors:  Shubhra Ghosh Dastidar; David P Lane; Chandra S Verma
Journal:  BMC Bioinformatics       Date:  2009-12-03       Impact factor: 3.169

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