Chronograms or Phylograms for trait evolution?
Measuring trait evolution in unit of time or in unit of substitutions?
Micro and macro evolution
Reconciling population genetics and phylogenetics, by confronting or integrating them. This pursuit involves theoretical modeling, methodological developments and empirical studies.
Research notes
A neutrality index for a trait
Is a trait evolving too fast or too slow?
🔎 Mutation-selection models
What are they and what are their use cases?
Fitness prediction across scales
Can a phylogenetic model predict the fitness effects of mutations in extant mammals?
Gene adaptation across scales
Are genes under adaptation across mammals still evolving too fast in terminal lineages?
Changing effects of mutations
Do the same mutations always have the same fitness effect?
Exploration-exploitation dilemma
Where is the trade-off between mutation and selection?
Red Queen dynamics
How to model an evolutionary arm races at the population level.
Projects and experiments
Where to Publish?
A database of for-profit and non-profit journals in biology, annotated by publisher type, business model, APC, Scimago rank, and partnership with Peer Community In (PCI). Academic …
ControverSciences
Website publishing collaboratively written synthesis of controversial topics, based on meta-analysis of scientific papers.
MonPotager
Plan a vegetable garden taking into account all positive and negative interactions between plants, held off parasites.
Salmon Scholar
Don’t get drowned in the flood of scientific publications. As a salmon, climb up the stream.
Teaching
(2021).
Démarche scientifique.
Non-random sample of publications
(2024).
Detecting Diversifying Selection for a Trait from within and Between-Species Genotypes and Phenotypes.
Journal of Evolutionary Biology.
(2024).
Estimating the Proportion of Beneficial Mutations That Are Not Adaptive in Mammals.
PLoS Genetics.
(2023).
Genes and Sites under Adaptation at the Phylogenetic Scale Also Exhibit Adaptation at the Population-Genetic Scale.
Proceedings of the National Academy of Sciences of the United States of America.
(2022).
An Improved Codon Modeling Approach for Accurate Estimation of the Mutation Bias.
Molecular Biology and Evolution.
(2021).
Quantifying the Impact of Changes in Effective Population Size and Expression Level on the Rate of Coding Sequence Evolution.
Theoretical Population Biology.
(2021).
Inferring Long-Term Effective Population Size with Mutation--Selection Models.
Molecular Biology and Evolution.