Inferring the demographic history of aye-ayes (Daubentonia madagascariensis) from high-quality, whole-genome, population-level data

JW Terbot II, V Soni, CJ Versoza… - Genome Biology and …, 2025 - academic.oup.com
The nocturnal aye-aye, Daubentonia madagascariensis, is one of the most elusive lemurs
on the island of Madagascar. The timing of its activity and arboreal lifestyle has generally …

Reply to: Population genetic considerations regarding the interpretation of within-patient SARS-CoV-2 polymorphism data

CW Nelson, LLM Poon, H Gu - Nature communications, 2024 - nature.com
In comments on our paper “Within-host genetic diversity of SARS-CoV-2 lineages in
unvaccinated and vaccinated individuals,” Soni et al. argue that the methods we employed …

Temporal challenges in detecting balancing selection from population genomic data

V Soni, JD Jensen - G3: Genes, Genomes, Genetics, 2024 - academic.oup.com
The role of balancing selection in maintaining genetic variation remains an open question in
population genetics. Recent years have seen numerous studies identifying candidate loci …

iHDSel software: The price equation and the population stability index to detect genomic patterns compatible with selective sweeps. An example with SARS-CoV-2

A Carvajal-Rodríguez - Biology Methods and Protocols, 2024 - academic.oup.com
A large number of methods have been developed and continue to evolve for detecting the
signatures of selective sweeps in genomes. Significant advances have been made …