Miranda C. Mudge

Carafe generates high-quality in silico spectral libraries for DIA proteomics by training deep learning models directly on DIA data, improving fragment ion intensity prediction and peptide detection.

This study identifies molecular biomarkers of coral resilience to thermal bleaching by comparing proteomic, microbiome, and physiological traits of surviving and dying corals.

The paper describes a high-resolution microbial metagenome dataset collected over 22 days during a phytoplankton bloom cycle, including gene abundances and time-matched environmental data.