In a majority–minority classification problem, class imbalance in the dataset (s) can
dramatically skew the performance of classifiers, introducing a prediction bias for the …

Knowing phylogenetic relationships among species is fundamental for many studies in
biology. An accurate phylogenetic tree underpins our understanding of the major transitions …

While the vast majority of well-structured single protein chains can now be predicted to high
accuracy due to the recent AlphaFold model, the prediction of multi-chain protein complexes …

INTRODUCTION Protein-protein interactions play critical roles in biology, but the structures
of many eukaryotic protein complexes are unknown, and there are likely many interactions …

Identifying homology relationships between sequences is fundamental to biological
research. Here we provide a novel orthogroup inference algorithm called OrthoFinder that …

Sclerotinia sclerotiorum and Botrytis cinerea are closely related necrotrophic plant
pathogenic fungi notable for their wide host ranges and environmental persistence. These …

Background Orthology analysis is an important part of data analysis in many areas of
bioinformatics such as comparative genomics and molecular phylogenetics. The ever …

Residue-residue coevolution has been observed across a number of protein-protein
interfaces, but the extent of residue coevolution between protein families on the whole …

Identification of bacterial protein–protein interactions and predicting the structures of these
complexes could aid in the understanding of pathogenicity mechanisms and develo** …

Much recent work has explored molecular and population-genetic constraints on the rate of
protein sequence evolution. The best predictor of evolutionary rate is expression level, for …