List of works - Jeremy M. Brown

A phylogenomic approach to vertebrate phylogeny supports a turtle-archosaur affinity and a possible paraphyletic lissamphibia

scientific article (publication date: 2012)

Bayes factors unmask highly variable information content, bias, and extreme influence in phylogenomic analyses

scientific article

Can We Identify Genes with Increased Phylogenetic Reliability?

scientific article published on 22 June 2015

DIM SUM: demography and individual migration simulated using a Markov chain

scientific article published on 26 October 2010

Deflating trees: improving Bayesian branch-length estimates using informed priors

scientific article published on 16 January 2015

Detection of implausible phylogenetic inferences using posterior predictive assessment of model fit.

scientific article published on 11 January 2014

EmpPrior: using outside empirical data to inform branch-length priors for Bayesian phylogenetics.

scientific article

Hinge Region in DNA Packaging Terminase pUL15 of Herpes Simplex Virus: A Potential Allosteric Target for Antiviral Drugs

scientific article published on 12 October 2019

Human adipose tissue as a reservoir for memory CD4+ T cells and HIV.

scientific article

Identification and Visualization of Functionally Important Domains and Residues in Herpes Simplex Virus Glycoprotein K(gK) Using a Combination of Phylogenetics and Protein Modeling

scientific article published on 10 October 2019

Impact of Model Violations on the Inference of Species Boundaries Under the Multispecies.

scientific article

Lack of Support for Socially Connected HIV-1 Transmission Among Young Adult Black Men Who Have Sex with Men.

scientific article

Newly discovered sister lineage sheds light on early ant evolution

scientific article

P3: Phylogenetic Posterior Prediction in RevBayes.

scientific article published on 10 November 2017

Poor fit to the multispecies coalescent is widely detectable in empirical data

scientific article

Predictive approaches to assessing the fit of evolutionary models

scientific article published on 21 February 2014

PuMA: Bayesian analysis of partitioned (and unpartitioned) model adequacy

scientific article

Quantifying the spatiotemporal dynamics in a chorus frog (Pseudacris) hybrid zone over 30 years.

scientific article

Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences.

scientific article

The behavior of Metropolis-coupled Markov chains when sampling rugged phylogenetic distributions.

scientific article published on 15 February 2018

The effect of ambiguous data on phylogenetic estimates obtained by maximum likelihood and Bayesian inference

scientific article

The importance of data partitioning and the utility of Bayes factors in Bayesian phylogenetics.

scientific article

TreeScaper: Visualizing and Extracting Phylogenetic Signal from Sets of Trees

scientific article

Untangling the influences of unmodeled evolutionary processes on phylogenetic signal in a forensically important HIV-1 transmission cluster

scientific article published on 28 February 2014

Variation Across Mitochondrial Gene Trees Provides Evidence for Systematic Error: How Much Gene Tree Variation Is Biological?

scientific article published on 01 September 2018

When trees grow too long: investigating the causes of highly inaccurate bayesian branch-length estimates.

scientific article

List of works by Jeremy M. Brown

A phylogenomic approach to vertebrate phylogeny supports a turtle-archosaur affinity and a possible paraphyletic lissamphibia

Bayes factors unmask highly variable information content, bias, and extreme influence in phylogenomic analyses

Can We Identify Genes with Increased Phylogenetic Reliability?

DIM SUM: demography and individual migration simulated using a Markov chain

Deflating trees: improving Bayesian branch-length estimates using informed priors

Detection of implausible phylogenetic inferences using posterior predictive assessment of model fit.

EmpPrior: using outside empirical data to inform branch-length priors for Bayesian phylogenetics.

Hinge Region in DNA Packaging Terminase pUL15 of Herpes Simplex Virus: A Potential Allosteric Target for Antiviral Drugs

Human adipose tissue as a reservoir for memory CD4+ T cells and HIV.

Identification and Visualization of Functionally Important Domains and Residues in Herpes Simplex Virus Glycoprotein K(gK) Using a Combination of Phylogenetics and Protein Modeling

Impact of Model Violations on the Inference of Species Boundaries Under the Multispecies.

Lack of Support for Socially Connected HIV-1 Transmission Among Young Adult Black Men Who Have Sex with Men.

Newly discovered sister lineage sheds light on early ant evolution

P3: Phylogenetic Posterior Prediction in RevBayes.

Poor fit to the multispecies coalescent is widely detectable in empirical data

Predictive approaches to assessing the fit of evolutionary models

PuMA: Bayesian analysis of partitioned (and unpartitioned) model adequacy

Quantifying the spatiotemporal dynamics in a chorus frog (Pseudacris) hybrid zone over 30 years.

Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences.

The behavior of Metropolis-coupled Markov chains when sampling rugged phylogenetic distributions.

The effect of ambiguous data on phylogenetic estimates obtained by maximum likelihood and Bayesian inference

The importance of data partitioning and the utility of Bayes factors in Bayesian phylogenetics.

TreeScaper: Visualizing and Extracting Phylogenetic Signal from Sets of Trees

Untangling the influences of unmodeled evolutionary processes on phylogenetic signal in a forensically important HIV-1 transmission cluster

Variation Across Mitochondrial Gene Trees Provides Evidence for Systematic Error: How Much Gene Tree Variation Is Biological?

When trees grow too long: investigating the causes of highly inaccurate bayesian branch-length estimates.