Molecular & Cellular Proteomics
Technological Innovation and ResourcesMaXLinker: Proteome-wide Cross-link Identifications with High Specificity and Sensitivity*
Graphical Abstract
Highlights
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New quality assessment metrics to evaluate proteome-wide cross-linking mass spectrometry (XL-MS) data sets.
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New “MS3-centric” cross-link search engine named MaXLinker with high sensitivity and specificity.
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More than 9300 cross-links from our human proteome-wide XL-MS study.
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Orthogonal experimental validation of novel interactions identified in our study.
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Author contributions: H.Y. conceived and oversaw all aspects of the study. K.Y., T.-Y.W., I.M., J.L., E.E.S., and H.Y. performed research. H.Y. carried out mass spectrometry runs for all HILIC samples.; K.Y., T.-Y.W., M.C.L., M.B.S., S.Z., and H.Y. analyzed data; K.Y. and H.Y. wrote the paper; H.Y. designed research; A.K.-Y.L. developed the user interface for the software.
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The authors declare that they have no conflicts of interest with the contents of this article.
This article contains supplemental Figures and Tables.
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Both authors contributed equally to this work.