Literature DB >> 23652634

Approximate Bayesian computation (ABC) gives exact results under the assumption of model error.

Richard David Wilkinson1.   

Abstract

Approximate Bayesian computation (ABC) or likelihood-free inference algorithms are used to find approximations to posterior distributions without making explicit use of the likelihood function, depending instead on simulation of sample data sets from the model. In this paper we show that under the assumption of the existence of a uniform additive model error term, ABC algorithms give exact results when sufficient summaries are used. This interpretation allows the approximation made in many previous application papers to be understood, and should guide the choice of metric and tolerance in future work. ABC algorithms can be generalized by replacing the 0-1 cut-off with an acceptance probability that varies with the distance of the simulated data from the observed data. The acceptance density gives the distribution of the error term, enabling the uniform error usually used to be replaced by a general distribution. This generalization can also be applied to approximate Markov chain Monte Carlo algorithms. In light of this work, ABC algorithms can be seen as calibration techniques for implicit stochastic models, inferring parameter values in light of the computer model, data, prior beliefs about the parameter values, and any measurement or model errors.

Mesh:

Year:  2013        PMID: 23652634     DOI: 10.1515/sagmb-2013-0010

Source DB:  PubMed          Journal:  Stat Appl Genet Mol Biol        ISSN: 1544-6115


  33 in total

1.  Lack of confidence in approximate Bayesian computation model choice.

Authors:  Christian P Robert; Jean-Marie Cornuet; Jean-Michel Marin; Natesh S Pillai
Journal:  Proc Natl Acad Sci U S A       Date:  2011-08-29       Impact factor: 11.205

2.  AABC: approximate approximate Bayesian computation for inference in population-genetic models.

Authors:  Erkan O Buzbas; Noah A Rosenberg
Journal:  Theor Popul Biol       Date:  2014-09-26       Impact factor: 1.570

3.  Simulation and inference algorithms for stochastic biochemical reaction networks: from basic concepts to state-of-the-art.

Authors:  David J Warne; Ruth E Baker; Matthew J Simpson
Journal:  J R Soc Interface       Date:  2019-02-28       Impact factor: 4.118

4.  Identifiability analysis for stochastic differential equation models in systems biology.

Authors:  Alexander P Browning; David J Warne; Kevin Burrage; Ruth E Baker; Matthew J Simpson
Journal:  J R Soc Interface       Date:  2020-12-16       Impact factor: 4.118

5.  Practical parameter identifiability for spatio-temporal models of cell invasion.

Authors:  Matthew J Simpson; Ruth E Baker; Sean T Vittadello; Oliver J Maclaren
Journal:  J R Soc Interface       Date:  2020-03-04       Impact factor: 4.118

6.  An integrated computational model of the bone microenvironment in bone-metastatic prostate cancer.

Authors:  Arturo Araujo; Leah M Cook; Conor C Lynch; David Basanta
Journal:  Cancer Res       Date:  2014-05-01       Impact factor: 12.701

Review 7.  A generalized, likelihood-free method for posterior estimation.

Authors:  Brandon M Turner; Per B Sederberg
Journal:  Psychon Bull Rev       Date:  2014-04

8.  Likelihood-free Bayesian analysis of memory models.

Authors:  Brandon M Turner; Simon Dennis; Trisha Van Zandt
Journal:  Psychol Rev       Date:  2013-04-15       Impact factor: 8.934

9.  Hierarchical approximate Bayesian computation.

Authors:  Brandon M Turner; Trisha Van Zandt
Journal:  Psychometrika       Date:  2013-12-03       Impact factor: 2.500

10.  Model criticism based on likelihood-free inference, with an application to protein network evolution.

Authors:  Oliver Ratmann; Christophe Andrieu; Carsten Wiuf; Sylvia Richardson
Journal:  Proc Natl Acad Sci U S A       Date:  2009-06-12       Impact factor: 11.205

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.