List of works - Vladimir N. Minin

A Bayesian phylogenetic hidden Markov model for B cell receptor sequence analysis

scientific article published on 17 August 2020

A counting renaissance: combining stochastic mapping and empirical Bayes to quickly detect amino acid sites under positive selection

scientific article published on 12 October 2012

A joint model for multistate disease processes and random informative observation times, with applications to electronic medical records data

scientific article

A statistical approach to peptide identification from clustered tandem mass spectrometry data

scientific article

Accounting for Uncertainty in the Tree Topology Has Little Effect on the Decision-Theoretic Approach to Model Selection in Phylogeny Estimation

article

Counting labeled transitions in continuous-time Markov models of evolution

scientific article published on 14 September 2007

Dual multiple change-point model leads to more accurate recombination detection.

scientific article published on 24 May 2005

Estimating effective population size changes from preferentially sampled genetic sequences

scientific article published on 12 October 2020

Estimation for general birth-death processes

scientific article published on April 2014

Fast, accurate and simulation-free stochastic mapping

scientific article published in December 2008

Fitting Birth-Death Processes to Panel Data with Applications to Bacterial DNA Fingerprinting

scientific article

Fitting and interpreting continuous-time latent Markov models for panel data

scientific article

Gaussian process-based Bayesian nonparametric inference of population size trajectories from gene genealogies

scientific article published on 14 February 2013

Heritability estimation of osteoarthritis in the pig-tailed macaque (Macaca nemestrina) with a look toward future data collection.

scientific article

High frequency of hotspot mutations in core genes of Escherichia coli due to short-term positive selection.

scientific article published on 15 July 2009

Horseshoe-based bayesian nonparametric estimation of effective population size trajectories

scientific article published on 11 April 2020

Hot and Cold: Spatial Fluctuation in HIV-1 Recombination Rates

article

Imputation Estimators Partially Correct for Model Misspecification

Learning to count: robust estimates for labeled distances between molecular sequences

scientific article published on 08 January 2009

Likelihood-based inference for discretely observed birth-death-shift processes, with applications to evolution of mobile genetic elements.

scientific article published on 6 July 2015

Locally adaptive Bayesian birth-death model successfully detects slow and rapid rate shifts

scientific article published on 28 October 2020

Measuring microsatellite conservation in mammalian evolution with a phylogenetic birth-death model

scientific article

Myosin-independent cytokinesis in Giardia utilizes flagella to coordinate force generation and direct membrane trafficking.

scientific article published on 5 July 2017

Performance-based selection of likelihood models for phylogeny estimation

scientific article published in October 2003

Phylogenetic stochastic mapping without matrix exponentiation

scientific article

Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid

scientific article

Predicting B cell receptor substitution profiles using public repertoire data

scientific article published on 17 October 2018

Quantifying and Mitigating the Effect of Preferential Sampling on Phylodynamic Inference ⬇️

scientific article

Quantifying evolutionary constraints on B-cell affinity maturation

scientific article

Recombination between variants from genital tract and plasma: evolution of multidrug-resistant HIV type 1

scientific article

Rejoinder for discussion on "Horseshoe-based Bayesian nonparametric estimation of effective population size trajectories"

scientific article published on 07 May 2020

Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics

scientific article published on 11 April 2008

Species delimitation using genome-wide SNP data

scientific article

Statistical methods for analyzing tissue microarray data

scientific article published in August 2004

Synonymous and nonsynonymous distances help untangle convergent evolution and recombination

scientific article published in August 2015

Using Genotype Abundance to Improve Phylogenetic Inference.

scientific article published on 20 February 2018

cBrother: relaxing parental tree assumptions for Bayesian recombination detection

scientific article

phylodyn: an R package for phylodynamic simulation and inference

scientific article published on November 2016

rbrothers: R Package for Bayesian Multiple Change-Point Recombination Detection

scientific article published on 12 June 2013

List of works by Vladimir N. Minin

A Bayesian phylogenetic hidden Markov model for B cell receptor sequence analysis

A counting renaissance: combining stochastic mapping and empirical Bayes to quickly detect amino acid sites under positive selection

A joint model for multistate disease processes and random informative observation times, with applications to electronic medical records data

A statistical approach to peptide identification from clustered tandem mass spectrometry data

Accounting for Uncertainty in the Tree Topology Has Little Effect on the Decision-Theoretic Approach to Model Selection in Phylogeny Estimation

Counting labeled transitions in continuous-time Markov models of evolution

Dual multiple change-point model leads to more accurate recombination detection.

Estimating effective population size changes from preferentially sampled genetic sequences

Estimation for general birth-death processes

Fast, accurate and simulation-free stochastic mapping

Fitting Birth-Death Processes to Panel Data with Applications to Bacterial DNA Fingerprinting

Fitting and interpreting continuous-time latent Markov models for panel data

Gaussian process-based Bayesian nonparametric inference of population size trajectories from gene genealogies

Heritability estimation of osteoarthritis in the pig-tailed macaque (Macaca nemestrina) with a look toward future data collection.

High frequency of hotspot mutations in core genes of Escherichia coli due to short-term positive selection.

Horseshoe-based bayesian nonparametric estimation of effective population size trajectories

Hot and Cold: Spatial Fluctuation in HIV-1 Recombination Rates

Imputation Estimators Partially Correct for Model Misspecification

Learning to count: robust estimates for labeled distances between molecular sequences

Likelihood-based inference for discretely observed birth-death-shift processes, with applications to evolution of mobile genetic elements.

Locally adaptive Bayesian birth-death model successfully detects slow and rapid rate shifts

Measuring microsatellite conservation in mammalian evolution with a phylogenetic birth-death model

Myosin-independent cytokinesis in Giardia utilizes flagella to coordinate force generation and direct membrane trafficking.

Performance-based selection of likelihood models for phylogeny estimation

Phylogenetic stochastic mapping without matrix exponentiation

Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid

Predicting B cell receptor substitution profiles using public repertoire data

Quantifying and Mitigating the Effect of Preferential Sampling on Phylodynamic Inference ⬇️

Quantifying evolutionary constraints on B-cell affinity maturation

Recombination between variants from genital tract and plasma: evolution of multidrug-resistant HIV type 1

Rejoinder for discussion on "Horseshoe-based Bayesian nonparametric estimation of effective population size trajectories"

Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics

Species delimitation using genome-wide SNP data

Statistical methods for analyzing tissue microarray data

Synonymous and nonsynonymous distances help untangle convergent evolution and recombination

Using Genotype Abundance to Improve Phylogenetic Inference.

cBrother: relaxing parental tree assumptions for Bayesian recombination detection

phylodyn: an R package for phylodynamic simulation and inference

rbrothers: R Package for Bayesian Multiple Change-Point Recombination Detection