Mary Ann Wood

The paper compares retained intron detection in short and long RNA-seq reads, finding significant disagreement among tools and poor precision/recall.

Pepsickle predicts proteasomal cleavage sites more accurately and quickly than existing tools, improving neoantigen identification for vaccine development.

neoepiscope improves neoepitope prediction by incorporating germline context and somatic variant phasing, addressing limitations in existing tools.