2 citations · 7 across the 8 of their papers we have counts for
9 papers
Epistatic strength, modularity, and locus heterogeneity shape the number of local optima in fitness landscapes
Mahan Ghafari, Alejandro Castro Cabrera, Alejandro Lage-Castellanos +3
Fitness landscapes provide a quantitative framework for understanding how natural selection shapes evolutionary trajectories. A central feature of these landscapes is their number…
Simple sign epistasis and evolutionary detours in fitness landscapes
Paolo Ribeca, Alejandro Castro, Alejandro Lage-Castellanos +8
In epistatic fitness landscapes, the fitness effect of a mutation depends on the genetic background and may even switch between deleterious and beneficial depending on the presence…
An appeal for an open scientific debate about the proximal origin of SARS-CoV-2
Jacques van Helden, Colin D Butler, Bruno Canard +10
One year after the onset of the COVID-19 pandemic, the origin of SARS-CoV-2 still eludes humanity. Early publications firmly stated that the virus was of natural origin, and the po…
Correlated evolution: models and methods
Guillaume Achaz, Julien Dutheil
In this article, we review the different models and methods to understand and estimate correlated evolution within the same genome, individual or species. We describe correlated ev…
The sequential loss of allelic diversity
Guillaume Achaz, Amaury Lambert, Emmanuel Schertzer
This paper gives a new flavor of what Peter Jagers and his co-authors call `the path to extinction'. In a neutral population with constant size , we assume that each individual…
The expected neutral frequency spectrum of linked sites
Luca Ferretti, Alexander Klassmann, Emanuele Raineri +3
We present an exact, closed expression for the expected neutral Site Frequency Spectrum for two neutral sites, 2-SFS, without recombination. This spectrum is the immediate extensio…
Decomposing the site frequency spectrum: the impact of tree topology on neutrality tests
Luca Ferretti, Alice Ledda, Guillaume Achaz +2
We investigate the dependence of the site frequency spectrum (SFS) on the topological structure of genealogical trees. We show that basic population genetic statistics - for instan…
Epistasis and constraints in fitness landscapes
Luca Ferretti, Daniel Weinreich, Benjamin Schmiegelt +4
Genotypic fitness landscapes are constructed by assessing the fitness of all possible combinations of a given number of mutations. In the last years, several experimental fitness l…
Properties of selected mutations and genotypic landscapes under Fisher's Geometric Model
François Blanquart, Guillaume Achaz, Thomas Bataillon +1
The fitness landscape - the mapping between genotypes and fitness - determines properties of the process of adaptation. Several small genetic fitness landscapes have recently been…