P. Pavlidis

Balancing selection on genomic deletion polymorphisms in humans

The paper identifies 63 ancient deletion polymorphisms in humans associated with GWAS traits and shows they likely evolved under balancing selection.

Evolutionary Models of Amino Acid Substitutions Based on the Tertiary Structure of their Neighborhoods

The paper develops an amino acid substitution model based on tertiary structure neighborhoods, showing substitutions correlate with spatial neighbor similarity.

Population genomics insights into the recent evolution of SARS-CoV-2

This study uses population genetics to analyze SARS-CoV-2 evolution, identifying recombination events and positive selection regions, suggesting contributions from pangolin, hedgehog, and sparrow coronaviruses.

ISX-9 manipulates endocrine progenitor fate revealing conserved intestinal lineages in mouse and human.

The paper uses ISX-9 to manipulate endocrine progenitor fate in mouse and human intestinal organoids, revealing conserved lineage relationships and identifying two major endocrine lineages.

Phylogenomics investigation of sparids (Teleostei: Spariformes) using high-quality proteomes highlights the importance of taxon sampling

The paper investigates sparid phylogeny using proteomes and finds Tetraodontiformes are closer relatives than previously thought, highlighting the importance of taxon sampling.

Amylase copy number analysis in several mammalian lineages reveals convergent adaptive bursts shaped by diet

The paper analyzes amylase copy number in mammals, finding convergent adaptive expansions linked to starch diets and increased enzymatic activity.