Optimization of Search and Acquisition Strategies for DSSO Crosslinking Mass Spectrometry using Protein Prospector and Touchstone
A new capability within the Protein Prospector search engine is implemented to improve MS2-based identification of MS-cleavable cross-linked peptides and Touchstone, a framework for re-scoring, classification, FDR-controlled summarization, and visualization of Prospector XL-MS search results are developed.