John Novembre

The paper evaluates non-linearities in phenotypic similarity versus genetic relatedness by analyzing three processes: imperfect tagging, assortative mating, and shared environments, using UK Biobank and All of Us data.

The paper develops a framework to infer time-varying migration rates by decoupling them from coalescence rates using structured serial coalescent theory.

This paper introduces a method to identify long-range genetic similarities in genetic data while accounting for spatially heterogeneous isolation-by-distance patterns, validated on human and gray wolf datasets.

This paper investigates how geographic breadth of sampling affects the discovery and frequency of rare, deleterious variants in genetic studies.

The paper develops an algorithm to estimate asymmetric migration rates in population genetic models and applies it to datasets from poplar trees, gray wolves, and humans, revealing complex migration patterns.

This paper introduces a statistical test to detect deviations from the Kingman coalescent model using the two-site frequency spectrum, showing that Drosophila melanogaster genomic data are inconsistent with the model.

The paper analyzes how demographic factors influence linkage disequilibrium measures under different recombination scenarios and provides recommendations for their use.

The paper derives properties of linkage disequilibrium and haplotype patterns in temporally structured samples, providing insights for analyzing ancient and modern genetic data.

The paper uses whole-genome sequencing to analyze indigenous ancestry in Uruguayans, identifying Amerindian genetic heritage and estimating admixture timing.

This paper introduces FEEMS, a faster alternative to EEMS for estimating effective migration surfaces, showing comparable accuracy with significantly reduced runtime.

This paper detects runs of homozygosity in ancient DNA to infer parental relatedness, finding low rates of close unions and a decline linked to agriculture adoption.

This study uses ancient DNA to trace Sardinia's population history from the Neolithic to the present, finding genetic continuity and limited Bronze Age Steppe ancestry.

The paper introduces a method to estimate time-varying migration rates and population sizes using genetic similarity data, applied to European populations to analyze recent demographic history.

The paper analyzes ancient DNA from the Andes to reveal genetic adaptations and population dynamics over 7,000 years, showing a split between high and lowland populations and a severe post-European-contact collapse.

This study uses whole-genome sequencing of 3,514 Sardinians to explore population history, finding genetic isolation in the Gennargentu region and sex-biased demographic patterns.

The paper identifies genetic evidence of positive and negative selection in Tibetan women from Nepal related to reproductive traits and offspring survival.

This paper introduces a grade of membership model to infer and visualize DNA damage patterns in ancient DNA, distinguishing ancient from modern samples and contamination.

The paper presents a model to predict local ancestry patterns in hybrid zones and discusses its application in testing natural selection on loci affecting hybrid fitness.

This paper introduces Karp, a method for accurately quantifying microbial community composition from pooled DNA samples using pseudoalignment and base quality information.

The paper develops a method to estimate the time to the common ancestor of a beneficial allele using a hidden Markov model and applies it to human population data.

The paper introduces a method to visualize spatial population structure using effective migration surfaces, identifying gene flow barriers from genetic data.