{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Kolbowski L"],"funding":["Deutsche Forschungsgemeinschaft","Wellcome Trust"],"pagination":["15461-15464"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC10603603"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["95(42)"],"pubmed_abstract":["Cross-linking mass spectrometry (MS) is currently transitioning from a routine tool in structural biology to enabling structural systems biology. MS-cleavable cross-linkers could substantially reduce the associated search space expansion by allowing a MS<sup>3</sup>-based approach for identifying cross-linked peptides. However, MS<sup>2</sup> (MS/MS)-based approaches currently outperform approaches utilizing MS<sup>3</sup>. We show here that the sensitivity and specificity of triggering MS<sup>3</sup> have been hampered algorithmically. Our four-step MS<sup>3</sup>-trigger algorithm greatly outperformed currently employed methods and comes close to reaching the theoretical limit."],"journal":["Analytical chemistry"],"pubmed_title":["Cleavable Cross-Linkers Redefined by a Novel MS<sup>3</sup>-Trigger Algorithm."],"pmcid":["PMC10603603"],"funding_grant_id":["EXC 2008","390540038","449713269","203149"],"pubmed_authors":["Rappsilber J","Fischer L","Kolbowski L"],"additional_accession":[]},"is_claimable":false,"name":"Cleavable Cross-Linkers Redefined by a Novel MS<sup>3</sup>-Trigger Algorithm.","description":"Cross-linking mass spectrometry (MS) is currently transitioning from a routine tool in structural biology to enabling structural systems biology. MS-cleavable cross-linkers could substantially reduce the associated search space expansion by allowing a MS<sup>3</sup>-based approach for identifying cross-linked peptides. However, MS<sup>2</sup> (MS/MS)-based approaches currently outperform approaches utilizing MS<sup>3</sup>. We show here that the sensitivity and specificity of triggering MS<sup>3</sup> have been hampered algorithmically. Our four-step MS<sup>3</sup>-trigger algorithm greatly outperformed currently employed methods and comes close to reaching the theoretical limit.","dates":{"release":"2023-01-01T00:00:00Z","publication":"2023 Oct","modification":"2026-05-28T08:32:06.964Z","creation":"2025-02-18T23:29:47.425Z"},"accession":"S-EPMC10603603","cross_references":{"pubmed":["37816155"],"doi":["10.1021/acs.analchem.3c01673"]}}