Cleavable Cross-Linkers Redefined by a Novel MS(3)-Trigger Algorithm

[Image: see text] 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(3)-based approach for ident...

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Autores principales: Kolbowski, Lars, Fischer, Lutz, Rappsilber, Juri
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2023
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10603603/
https://www.ncbi.nlm.nih.gov/pubmed/37816155
http://dx.doi.org/10.1021/acs.analchem.3c01673
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author Kolbowski, Lars
Fischer, Lutz
Rappsilber, Juri
author_facet Kolbowski, Lars
Fischer, Lutz
Rappsilber, Juri
author_sort Kolbowski, Lars
collection PubMed
description [Image: see text] 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(3)-based approach for identifying cross-linked peptides. However, MS(2) (MS/MS)-based approaches currently outperform approaches utilizing MS(3). We show here that the sensitivity and specificity of triggering MS(3) have been hampered algorithmically. Our four-step MS(3)-trigger algorithm greatly outperformed currently employed methods and comes close to reaching the theoretical limit.
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spelling pubmed-106036032023-10-28 Cleavable Cross-Linkers Redefined by a Novel MS(3)-Trigger Algorithm Kolbowski, Lars Fischer, Lutz Rappsilber, Juri Anal Chem [Image: see text] 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(3)-based approach for identifying cross-linked peptides. However, MS(2) (MS/MS)-based approaches currently outperform approaches utilizing MS(3). We show here that the sensitivity and specificity of triggering MS(3) have been hampered algorithmically. Our four-step MS(3)-trigger algorithm greatly outperformed currently employed methods and comes close to reaching the theoretical limit. American Chemical Society 2023-10-10 /pmc/articles/PMC10603603/ /pubmed/37816155 http://dx.doi.org/10.1021/acs.analchem.3c01673 Text en © 2023 The Authors. Published by American Chemical Society https://creativecommons.org/licenses/by/4.0/Permits the broadest form of re-use including for commercial purposes, provided that author attribution and integrity are maintained (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Kolbowski, Lars
Fischer, Lutz
Rappsilber, Juri
Cleavable Cross-Linkers Redefined by a Novel MS(3)-Trigger Algorithm
title Cleavable Cross-Linkers Redefined by a Novel MS(3)-Trigger Algorithm
title_full Cleavable Cross-Linkers Redefined by a Novel MS(3)-Trigger Algorithm
title_fullStr Cleavable Cross-Linkers Redefined by a Novel MS(3)-Trigger Algorithm
title_full_unstemmed Cleavable Cross-Linkers Redefined by a Novel MS(3)-Trigger Algorithm
title_short Cleavable Cross-Linkers Redefined by a Novel MS(3)-Trigger Algorithm
title_sort cleavable cross-linkers redefined by a novel ms(3)-trigger algorithm
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10603603/
https://www.ncbi.nlm.nih.gov/pubmed/37816155
http://dx.doi.org/10.1021/acs.analchem.3c01673
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