ArticleJournal of the Royal Statistical Society. Series B, Statistical methodology2011
Bayesian Nonparametric Hidden Markov Models with application to the analysis of copy-number-variation in mammalian genomes.
Article in Journal of the Royal Statistical Society. Series B, Statistical methodology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- A hidden Markov modeling approach for identifying tumor subclones in next-generation sequencing studies.Biostatistics (Oxford, England) · 2022Article
- Identifying the Recurrence of Sleep Apnea Using A Harmonic Hidden Markov Model.The annals of applied statistics · 2021Article
- Uncovering ecological state dynamics with hidden Markov models.Ecology letters · 2020Review
- Bayesian adaptive group lasso with semiparametric hidden Markov models.Statistics in medicine · 2019Article
- An Introduction to Infinite HMMs for Single-Molecule Data Analysis.Biophysical journal · 2017Review
- A semiparametric Bayesian model for comparing DNA copy numbers.Brazilian journal of probability and statistics · 2016Article
- A Bayesian nonparametric approach for uncovering rat hippocampal population codes during spatial navigation.Journal of neuroscience methods · 2016Article
- Article
- PReMiuM: An R Package for Profile Regression Mixture Models Using Dirichlet Processes.Journal of statistical software · 2015Article
- Marginally specified priors for non-parametric Bayesian estimation.Journal of the Royal Statistical Society. Series B, Statistical methodology · 2015Article
- Generalized species sampling priors with latent Beta reinforcements.Journal of the American Statistical Association · 2014Article
- Copy number polymorphisms near SLC2A9 are associated with serum uric acid concentrations.BMC genetics · 2014Article
- Bayes variable selection in semiparametric linear models.Journal of the American Statistical Association · 2014Article
- A genome-wide study of de novo deletions identifies a candidate locus for non-syndromic isolated cleft lip/palate risk.BMC genetics · 2014Article
- A bayesian integrative model for genetical genomics with spatially informed variable selection.Cancer informatics · 2014Article
- Classification via Bayesian Nonparametric Learning of Affine Subspaces.Journal of the American Statistical Association · 2013Article
- Fast detection of de novo copy number variants from SNP arrays for case-parent trios.BMC bioinformatics · 2012Article
- Nonparametric Bayes Classification and Hypothesis Testing on Manifolds.Journal of multivariate analysis · 2012Article
- Reconstructing DNA copy number by joint segmentation of multiple sequences.BMC bioinformatics · 2012Article
- Bayesian Kernel Mixtures for Counts.Journal of the American Statistical Association · 2011Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
We consider the development of Bayesian Nonparametric methods for product partition models such as Hidden Markov Models and change point models. Our approach uses a Mixture of Dirichlet Process (MDP) model for the unknown sampling distribution (likelihood) for the observations arising in each state and a computationally efficient data augmentation scheme to aid inference. The method uses novel MCMC methodology which combines recent retrospective sampling methods with the use of slice sampler variables. The methodology is computationally efficient, both in terms of MCMC mixing properties, and robustness to the length of the time series being investigated. Moreover, the method is easy to implement requiring little or no user-interaction. We apply our methodology to the analysis of genomic copy number variation.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.