Jiang Zhu

DPHL v2 improves upon DPHL v1 by including semi-tryptic peptides and protein isoforms, increasing identified and dysregulated proteins in colorectal cancer analysis.

This paper presents a computational strategy to optimize spectral library size for DIA-MS data, improving peptide and protein identification rates in colorectal and carcinoma samples.

The paper introduces DPHL, a pan-human protein mass spectrometry library built using DIA and PRM, and demonstrates its utility in identifying differentially expressed proteins in prostate cancer and DLBCL.

This paper develops a deep learning method using DIA tensor for phenotype prediction from mass spectrometry data, achieving high accuracy in cancer classification.

This study uses PCT-SWATH to analyze proteomic changes in HCC biopsy samples, identifying 23 upregulated pathways and 13 downregulated ones, with notable changes in virus-infection-related proteins in HBV+ patients.