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List of works by Guy Baele

A Relaxed Directional Random Walk Model for Phylogenetic Trait Evolution

scientific article published on 18 October 2016

A model-based approach to study nearest-neighbor influences reveals complex substitution patterns in non-coding sequences.

scientific article published in October 2008

A screening methodology based on Random Forests to improve the detection of gene-gene interactions

scientific article published on 12 May 2010

Accounting for population structure reveals ambiguity in the Zaire Ebolavirus reservoir dynamics

scientific article published on 04 March 2020

Accurate model selection of relaxed molecular clocks in bayesian phylogenetics

scientific article published on 22 October 2012

Adaptive MCMC in Bayesian phylogenetics: an application to analyzing partitioned data in BEAST.

scientific article

Advances in Visualization Tools for Phylogenomic and Phylodynamic Studies of Viral Diseases

scientific article published on 02 August 2019

Air travel is associated with intracontinental spread of dengue virus serotypes 1-3 in Brazil

scientific article

An improved statistical method for detecting heterotachy in nucleotide sequences

scientific article published on 3 May 2006

Analysis of 41 plant genomes supports a wave of successful genome duplications in association with the Cretaceous-Paleogene boundary

scientific article

BEAGLE 3: Improved Performance, Scaling, and Usability for a High-Performance Computing Library for Statistical Phylogenetics

scientific article published on 01 November 2019

Bayesian Evaluation of Temporal Signal in Measurably Evolving Populations

scientific article published on 21 October 2019

Bayesian Inference Reveals Host-Specific Contributions to the Epidemic Expansion of Influenza A H5N1.

scientific article published on 3 September 2015

Bayesian codon substitution modelling to identify sources of pathogen evolutionary rate variation

scientific article published on 24 June 2016

Bayesian estimation of past population dynamics in BEAST 1.10 using the Skygrid coalescent model

scientific article published on 31 July 2019

Bayesian evolutionary model testing in the phylogenomics era: matching model complexity with computational efficiency

scientific article

Bayesian inference of evolutionary histories under time-dependent substitution rates

scientific article published on 01 August 2019

Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10.

scientific article published in January 2018

Context-Dependent Evolutionary Models for Non-Coding Sequences: An Overview of Several Decades of Research and an Analysis of Laurasiatheria and Primate Evolution

article by Guy Baele published 9 October 2011 in Evolutionary Biology

Context-dependent codon partition models provide significant increases in model fit in atpB and rbcL protein-coding genes

scientific article

Disentangling the impact of within-host evolution and transmission dynamics on the tempo of HIV-1 evolution

scientific article published on July 2015

Distinct rates and patterns of spread of the major HIV-1 subtypes in Central and East Africa

scientific article published on 06 December 2019

Domestication and Divergence of Saccharomyces cerevisiae Beer Yeasts

scientific article published on September 2016

Efficient context-dependent model building based on clustering posterior distributions for non-coding sequences

scientific article

Emergence and spread of SARS-CoV-2 lineage B.1.620 with variant of concern-like mutations and deletions

scientific article published on 01 October 2021

Emerging Concepts of Data Integration in Pathogen Phylodynamics ⬇️

scientific article

Evolutionary history and introduction of SARS-CoV-2 Alpha VOC/B.1.1.7 in Pakistan through international travelers

scientific article published on 17 March 2022

Genealogical Working Distributions for Bayesian Model Testing with Phylogenetic Uncertainty

scientific article

Genome-wide diversity of Zika virus: Exploring spatio-temporal dynamics to guide a new nomenclature proposal

scientific article published in 2022

Genomic and epidemiological monitoring of yellow fever virus transmission potential

scientific article published in Science

Genomic sequencing of SARS-CoV-2 in Rwanda reveals the importance of incoming travelers on lineage diversity

scientific article published on 29 September 2021

HIV epidemiology. The early spread and epidemic ignition of HIV-1 in human populations

scientific article

High-Performance Computing in Bayesian Phylogenetics and Phylodynamics Using BEAGLE

scientific article published on 01 January 2019

Host Genetic Variation Does Not Determine Spatio-Temporal Patterns of European Bat 1 Lyssavirus

scientific article published on 20 November 2017

Host ecology determines the dispersal patterns of a plant virus

scientific article published on 16 December 2015

Hunting alters viral transmission and evolution in a large carnivore

scientific article published on 27 January 2022

Identifying predictors of time-inhomogeneous viral evolutionary processes

scientific article published on July 2016

Identifying the patterns and drivers of enzootic dynamics using reservoir sampling

scientific article published on 01 January 2019

Inferring heterogeneous evolutionary processes through time: from sequence substitution to phylogeography

scientific article

International travelers and genomics uncover a ‘hidden’ Zika outbreak

scientific article published on 14 December 2018

Interpretation of urinary concentrations of pseudoephedrine and its metabolite cathine in relation to doping control

scientific article published in May 2009

Make the most of your samples: Bayes factor estimators for high-dimensional models of sequence evolution

scientific article

Modelling the ancestral sequence distribution and model frequencies in context-dependent models for primate non-coding sequences

scientific article

On Adaptive Self-Organization in Artificial Robot Organisms

On the Use of Phylogeographic Inference to Infer the Dispersal History of Rabies Virus: A Review Study

scientific article published in 2021

Open-ended on-board Evolutionary Robotics for robot swarms

PhyloGeoTool: interactively exploring large phylogenies in an epidemiological context.

scientific article published on 26 August 2017

Phylodynamic assessment of intervention strategies for the West African Ebola virus outbreak.

scientific article

Phylogenetic Factor Analysis

scientific article published on 7 August 2017

Quantifying Next Generation Sequencing Sample Pre-Processing Bias in HIV-1 Complete Genome Sequencing

scientific article published on 7 January 2016

Quantifying rates of HIV-1 flow between risk groups and geographic locations in Kenya: A country-wide phylogenetic study

scientific article published on 03 March 2022

Recent advances in computational phylodynamics

scientific article published on 01 August 2018

Reconstruction of the origin and dispersal of the worldwide dominant Hepatitis B Virus subgenotype D1

scientific article published in 2022

Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable

scientific article published on 07 May 2020

Sampling bias and model choice in continuous phylogeography: Getting lost on a random walk

scientific article published on 06 January 2021

SpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes.

scientific article

Stability of selected chlorinated thiazide diuretics

scientific article

Sub-Epidemics Explain Localized High Prevalence of Reduced Susceptibility to Rilpivirine in Treatment-Naive HIV-1-Infected Patients: Subtype and Geographic Compartmentalization of Baseline Resistance Mutations

scientific article published on 13 December 2015

The epidemic dynamics of hepatitis C virus subtypes 4a and 4d in Saudi Arabia

scientific article published on 21 March 2017

The genealogical population dynamics of HIV-1 in a large transmission chain: bridging within and among host evolutionary rates

scientific article (publication date: April 2014)

The genome of Tetranychus urticae reveals herbivorous pest adaptations

scientific article

Travel Surveillance and Genomics Uncover a Hidden Zika Outbreak during the Waning Epidemic

scholarly article by Nathan D. Grubaugh et al published 22 August 2019 in Cell

Unifying viral genetics and human transportation data to predict the global transmission dynamics of human influenza H3N2.

scientific article

Untangling introductions and persistence in COVID-19 resurgence in Europe

scholarly article by Philippe Lemey published in 2021

Using non-reversible context-dependent evolutionary models to study substitution patterns in primate non-coding sequences

scientific article

Using phylogeographic approaches to analyse the dispersal history, velocity and direction of viral lineages - Application to rabies virus spread in Iran

scientific article published on 18 September 2019

Virus genomes reveal factors that spread and sustained the Ebola epidemic

scientific article (publication date: 12 April 2017)

nosoi: A stochastic agent-based transmission chain simulation framework in r

scientific article published on 21 June 2020

πBUSS: a parallel BEAST/BEAGLE utility for sequence simulation under complex evolutionary scenarios

scientific article

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