Conor R. Walker

This paper introduces a convolutional neural network to detect interspecific positive selection, achieving higher accuracy and robustness to alignment errors compared to traditional statistical methods.

The paper uses paired CRISPR screens to identify cis- and trans-regulatory elements controlling PD-L1 expression in PDAC cells and links them to clinical outcomes.

The paper introduces phastSim, a tool for efficiently simulating sequence evolution on large phylogenetic trees, particularly for SARS-CoV-2-like datasets.

The paper introduces a pair hidden Markov model to detect short-range template switch mutations in great ape genomes and shows their prevalence in evolutionary history.

The paper identifies lab-specific recurrent mutations in SARS-CoV-2 sequences that affect phylogenetic inference and proposes tools to improve sequence quality and phylogeny comparison.