In-Search Assignment of Monoisotopic Peaks Improves the Identification of Cross-Linked Peptides.

ABSTRACT: Cross-linking/mass spectrometry has undergone a maturation process akin to standard proteomics by adapting key methods such as false discovery rate control and quantification. A poorly evaluated search setting in proteomics is the consideration of multiple (lighter) alternative values for the monoisotopic precursor mass to compensate for possible misassignments of the monoisotopic peak. Here, we show that monoisotopic peak assignment is a major weakness of current data handling approaches in cross-linking. Cross-linked peptides often have high precursor masses, which reduces the presence of the monoisotopic peak in the isotope envelope. Paired with generally low peak intensity, this generates a challenge that may not be completely solvable by precursor mass assignment routines. We therefor

SUBMITTER: Lenz S 

PROVIDER: S-EPMC6279313 | biostudies-literature | 2018 Nov

REPOSITORIES: biostudies-literature