David Gomez‐Zepeda

This study benchmarks DDA-PASEF immunopeptidomics software tools, showing PEAKS identifies the most immunopeptides, while database size affects performance across platforms.

MAETi enables immunopeptidome profiling from 1E4 cells with high peptide coverage and SAV epitope detection.

TIMS2Rescore is a data-driven rescoring pipeline optimized for DDA-PASEF data that improves protein identification in proteomics analyses.

This study identifies how GDAP1 loss of function disrupts actin signaling, leading to mitochondrial tubularity and metabolic changes in CMT4A.

This paper demonstrates that locality-sensitive hashing can classify signals in high-throughput mass spectrometry data efficiently and scalably.

This study identifies and functionally characterizes the Lin28/let-7 circuit in axolotl regeneration, showing its role in metabolic reprogramming during limb regeneration.