Wenrong Chen

XL-Ranker resolves peptide-mapping ambiguity in XL-MS data to infer high-confidence PPIs, improving the reliability of interaction networks.

The paper introduces PTM-TBA, a software pipeline that identifies and localizes post-translational modifications in proteoforms using top-down and bottom-up mass spectrometry combined with UniProt annotations.

The paper evaluates machine learning models for predicting proteoform retention and migration times in top-down mass spectrometry, finding high accuracy with Prosit and a neural network model.

This paper introduces TopPG, a tool for identifying proteoforms with genetic alterations and alternative splicing using top-down mass spectrometry data from colorectal cancer cells.