Julianne K. David

The paper evaluates the impact of methodological differences on splicing neoepitope prediction, finding high variability and limited reproducibility across pipelines.

The paper creates a pan-MHC reference graph with 246 fully contiguous phased sequences, improving variant calling accuracy and population diversity representation.

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