Aurélie Hirschler

This study optimizes a DDA-PASEF-based immunopeptidomics workflow to enhance HLA class I peptide coverage in low-input samples.

The paper presents the E. coli PeptideAtlas build, a comprehensive pan-proteome resource covering 4,755 proteins and over 10,000 PTM sites from 40 datasets.

The paper develops a tool to track exosomal cargoes by labeling Rab7 partners using proximity labeling and mass spectrometry.

The paper investigates the effects of red and black iron oxide pigments on macrophages, finding that red iron oxide causes mitochondrial dysfunction, oxidative stress, and pro-inflammatory cytokine secretion.

This study identifies astrogliosis and neuroinflammation as pathogenic mechanisms underlying scoliosis in zebrafish caused by cilia dysfunction.

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

MS2Rescore improves immunopeptide identification rates by integrating retrained MS2PIP, DeepLC, and Percolator, achieving higher spectrum identification rates and unique peptide counts.