Jian Song

xTracer identifies peptides in PAMAF data by integrating chromatogram and mobiligram correlations, improving identification accuracy over single-domain methods.

This study uses mathematical modeling to show that viral infections reshape the antibody repertoire through the proliferation of high-affinity antibody pools and contraction of low-affinity pools, with self-antigens maintaining antibody persistence.

Beta-DIA improves proteome profiling by combining deep learning and function-based scores for diaPASEF data, doubling protein group detection in low datasets.

Alpha-XIC improves peptide identification in DIA mass spectrometry by learning robust coelution scores from peak group data, enhancing identification accuracy and recovery of misidentified peptides.

Alpha-Frag improves peptide identification by predicting fragment ion presence with a deep neural network, enhancing detection rates in DDA and DIA data.