Guo Ci Teo

The paper presents a comprehensive spatial proteome map of human tissues and cancers, enabling drug response analysis and target discovery.

diaTracer enables spectrum-centric analysis of diaPASEF proteomics data by generating pseudo-MS/MS spectra for direct peptide identification and quantification.

MSFragger-Labile improves the analysis of labile post-translational modifications by incorporating modification-specific fragment ions into mass spectrometry searches.

The paper introduces MSFragger-DIA, a tool for fast and sensitive peptide identification from DIA proteomics data, integrated into FragPipe, and demonstrates its performance across various sample types.

MSBooster improves peptide identification rates by integrating deep learning-based features into existing workflows with MSFragger and Percolator.

The paper demonstrates improved proteomic depth using DIA-NN and FragPipe for dia-PASEF data, achieving higher sensitivity and quantification in complex samples.

MSFragger-Glyco improves glycopeptide identification in N- and O-glycoproteomics data, increasing glycoPSMs and revealing new glycan trends.

The paper introduces MSFragger and IonQuant for fast analysis of timsTOF PASEF data, showing improved peptide identification and quantification compared to existing tools.