CIDer: A Statistical Framework for Interpreting Differences in CID and HCD Fragmentation.

ABSTRACT: Library searching is a powerful technique for detecting peptides using either data independent or data dependent acquisition. While both large-scale spectrum library curators and deep learning prediction approaches have focused on beam-type CID fragmentation (HCD), resonance CID fragmentation remains a popular technique. Here we demonstrate an approach to model the differences between HCD and CID spectra, and present a software tool, CIDer, for converting libraries between the two fragmentation methods. We demonstrate that just using a combination of simple linear models and basic principles of peptide fragmentation, we can explain up to 43% of the variation between ions fragmented by HCD and CID across an array of collision energy settings. We further show that in some circumstances, sear

SUBMITTER: Wilburn DB 

PROVIDER: S-EPMC8256874 | biostudies-literature | 2021 Apr

REPOSITORIES: biostudies-literature