Supramolecular neuromuscular blocker inhibition by a pillar[5]arene through aqueous inclusion of rocuronium bromide

Dmitriy N. Shurpik, Olga A. Mostovaya, Denis A. Sevastyanov, Oksana A. Lenina, Anastasiya S. Sapunova, Alexandra D. Voloshina, Konstantin A. Petrov, Irina V. Kovyazina, Peter J. Cragg and Ivan I. Stoikov

Org. Biomol. Chem., 2019, 17, 9951
DOI: 10.1039/C9OB02215E

Synthesis of CID-cleavable protein crosslinking agents containing quaternary amines for structural mass spectrometry

Susan E. Hagen, Kun Liu, Yafei Jin, Lolita Piersimoni, Philip C. Andrews and Hollis D. Showalter

Org. Biomol. Chem., 2018, 16, 8245
DOI: 10.1039/C8OB00329G

Protocol to identify human subcellular alternative protein interactions using cross-linking mass spectrometry

Diego Fernando Garcia-del Rio, Isabelle Fournier, Tristan Cardon and Michel Salzet

STAR Protocols, 2023, 4, 102380
DOI: 10.1016/j.xpro.2023.102380

DSBSO-Based XL-MS Analysis of Breast Cancer PDX Tissues to Delineate Protein Interaction Network in Clinical Samples

Fenglong Jiao, Clinton Yu, Andrew Wheat, Lijun Chen, Tung-Shing Mamie Lih, Hui Zhang and Lan Huang

J. Proteome Res., 2024, 23, 3269
DOI: 10.1021/acs.jproteome.3c00832

Crosslinking and Mass Spectrometry: An Integrated Technology to Understand the Structure and Function of Molecular Machines

Alexander Leitner, Marco Faini, Florian Stengel and Ruedi Aebersold

Trends in Biochemical Sciences, 2016, 41, 20
DOI: 10.1016/j.tibs.2015.10.008

Progress in methodologies and quality‐control strategies in protein cross‐linking mass spectrometry

Kumar Yugandhar, Qiuye Zhao, Shobhita Gupta, Dapeng Xiong and Haiyuan Yu

Proteomics, 2021, 21
DOI: 10.1002/pmic.202100145

Exhaustive Cross-Linking Search with Protein Feedback

Chen Zhou, Shuaijian Dai, Yuanqiao Lin, Sheng Lian, Xiaodan Fan, Ning Li and Weichuan Yu

J. Proteome Res., 2023, 22, 101
DOI: 10.1021/acs.jproteome.2c00500

The potential of cross-linking mass spectrometry in the development of protein–protein interaction modulators

Max Ruwolt, Ilaria Piazza and Fan Liu

Current Opinion in Structural Biology, 2023, 82, 102648
DOI: 10.1016/j.sbi.2023.102648

Synthesis of 5-[(Alkylsulfanyl)methyl]-1,3-dioxanes from 3-[(Alkylsulfanyl)methyl]pentane-2,4-diols

L. A. Baeva, L. F. Biktasheva and A. A. Fatykhov

Žurnal obŝej himii, 2024, 94, 194
DOI: 10.31857/S0044460X24020044

Xilmass: A New Approach toward the Identification of Cross-Linked Peptides

Şule Yılmaz, Friedel Drepper, Niels Hulstaert, Maša Černič, Kris Gevaert, Anastassios Economou, Bettina Warscheid, Lennart Martens and Elien Vandermarliere

Anal. Chem., 2016, 88, 9949
DOI: 10.1021/acs.analchem.6b01585

Protein interaction landscapes revealed by advanced in vivo cross-linking–mass spectrometry

Andrew Wheat, Clinton Yu, Xiaorong Wang, Anthony M. Burke, Ilan E. Chemmama, Robyn M. Kaake, Peter Baker, Scott D. Rychnovsky, Jing Yang and Lan Huang

Proc. Natl. Acad. Sci. U.S.A., 2021, 118
DOI: 10.1073/pnas.2023360118

Evaluating Imide-Based Mass Spectrometry-Cleavable Cross-Linkers for Structural Proteomics Studies

Alessio Di Ianni, Christian H. Ihling, Tomáš Vranka, Václav Matoušek, Andrea Sinz and Claudio Iacobucci

JACS Au, 2024, 4, 2936
DOI: 10.1021/jacsau.4c00282

Efficient and robust proteome-wide approaches for cross-linking mass spectrometry

Oleg Klykov, Barbara Steigenberger, Sibel Pektaş, Domenico Fasci, Albert J. R. Heck and Richard A. Scheltema

Nat Protoc, 2018, 13, 2964
DOI: 10.1038/s41596-018-0074-x

Mass Spectrometry Structural Proteomics Enabled by Limited Proteolysis and Cross‐Linking

Haiyan Lu, Zexin Zhu, Lauren Fields, Hua Zhang and Lingjun Li

Mass Spectrometry Reviews, 2024
DOI: 10.1002/mas.21908

A Click‐Chemistry‐Based Enrichable Crosslinker for Structural and Protein Interaction Analysis by Mass Spectrometry

Michael Stadlmeier, Leander Simon Runtsch, Filipp Streshnev, Martin Wühr and Thomas Carell

ChemBioChem, 2020, 21, 103
DOI: 10.1002/cbic.201900611

Mimicked synthetic ribosomal protein complex for benchmarking crosslinking mass spectrometry workflows

Manuel Matzinger, Adrian Vasiu, Mathias Madalinski, Fränze Müller, Florian Stanek and Karl Mechtler

Nat Commun, 2022, 13
DOI: 10.1038/s41467-022-31701-w

Novel Concepts of MS-Cleavable Cross-linkers for Improved Peptide Structure Analysis

Christoph Hage, Francesco Falvo, Mathias Schäfer and Andrea Sinz

J. Am. Soc. Mass Spectrom., 2017, 28, 2022
DOI: 10.1007/s13361-017-1712-1

Conjugation of primary amine groups in targeted proteomics

Yang Cai

Mass Spectrometry Reviews, 2025, 44, 773
DOI: 10.1002/mas.21906

Fast and Highly Efficient Affinity Enrichment of Azide-A-DSBSO Cross-Linked Peptides

Manuel Matzinger, Wolfgang Kandioller, Philipp Doppler, Elke H. Heiss and Karl Mechtler

J. Proteome Res., 2020, 19, 2071
DOI: 10.1021/acs.jproteome.0c00003

Dissociation Behavior of a TEMPO-Active Ester Cross-Linker for Peptide Structure Analysis by Free Radical Initiated Peptide Sequencing (FRIPS) in Negative ESI-MS

Christoph Hage, Christian H. Ihling, Michael Götze, Mathias Schäfer and Andrea Sinz

J. Am. Soc. Mass Spectrom., 2017, 28, 56
DOI: 10.1007/s13361-016-1426-9

Cleavable Cross-Linkers and Mass Spectrometry for the Ultimate Task of Profiling Protein–Protein Interaction Networks in Vivo

Manuel Matzinger and Karl Mechtler

J. Proteome Res., 2021, 20, 78
DOI: 10.1021/acs.jproteome.0c00583

Alternative proteins are functional regulators in cell reprogramming by PKA activation

Tristan Cardon, Julien Franck, Etienne Coyaud, Estelle M N Laurent, Marina Damato, Michele Maffia, Daniele Vergara, Isabelle Fournier and Michel Salzet

Nucleic Acids Research, 2020, 48, 7864
DOI: 10.1093/nar/gkaa277

Mass Spectrometry‐Based Proteomics Technologies to Define Endogenous Protein‐Protein Interactions and Their Applications to Cancer and Viral Infectious Diseases

Clinton Yu, Rithika Adavikolanu, Robyn M. Kaake and Lan Huang

Mass Spectrometry Reviews, 2025
DOI: 10.1002/mas.21926

Optimized Fragmentation Improves the Identification of Peptides Cross-Linked by MS-Cleavable Reagents

Christian E. Stieger, Philipp Doppler and Karl Mechtler

J. Proteome Res., 2019, 18, 1363
DOI: 10.1021/acs.jproteome.8b00947

Cross-Linking Mass Spectrometry for Investigating Protein Conformations and Protein–Protein Interactions─A Method for All Seasons

Lolita Piersimoni, Panagiotis L. Kastritis, Christian Arlt and Andrea Sinz

Chem. Rev., 2022, 122, 7500
DOI: 10.1021/acs.chemrev.1c00786

Interfaces with Structure Dynamics of the Workhorses from Cells Revealed through Cross-Linking Mass Spectrometry (CLMS)

Umesh Kalathiya, Monikaben Padariya, Jakub Faktor, Etienne Coyaud, Javier A. Alfaro, Robin Fahraeus, Ted R. Hupp and David R. Goodlett

Biomolecules, 2021, 11, 382
DOI: 10.3390/biom11030382

Accurate Retention Time Prediction Based on Monolinked Peptide Information to Confidently Identify Cross-Linked Peptides

Rong Huang, Wei Zhu, Zili Xu, Jiakang Chen, Biao Jiang, Hongli Chen and Wenzhang Chen

J. Am. Soc. Mass Spectrom., 2021, 32, 2410
DOI: 10.1021/jasms.1c00120

In vivo crosslinking and effective 2D enrichment for proteome wide interactome studies

Philipp Bräuer, Laszlo Tirian, Fränze Müller, Karl Mechtler and Manuel Matzinger

Commun Chem, 2025, 8
DOI: 10.1038/s42004-025-01644-6

Optimizing the Parameters Governing the Fragmentation of Cross-Linked Peptides in a Tribrid Mass Spectrometer

Lars Kolbowski, Marta L. Mendes and Juri Rappsilber

Anal. Chem., 2017, 89, 5311
DOI: 10.1021/acs.analchem.6b04935

Rational Modification of a Cross-Linker for Improved Flexible Protein Structure Modeling

Iakovos Saridakis, Kish R. Adoni, Thomas Leischner, Bogdan R. Brutiu, Saad Shaaban, Giammarco Ferrari, Konstantinos Thalassinos and Nuno Maulide

Anal. Chem., 2025, 97, 1273
DOI: 10.1021/acs.analchem.4c05319

MS Annika 2.0 Identifies Cross-Linked Peptides in MS2–MS3-Based Workflows at High Sensitivity and Specificity

Micha J. Birklbauer, Manuel Matzinger, Fränze Müller, Karl Mechtler and Viktoria Dorfer

J. Proteome Res., 2023, 22, 3009
DOI: 10.1021/acs.jproteome.3c00325

Exploring Spacer Arm Structures for Designs of Asymmetric Sulfoxide-Containing MS-Cleavable Cross-Linkers

Clinton Yu, Eric J. Novitsky, Nicholas W. Cheng, Scott D. Rychnovsky and Lan Huang

Anal. Chem., 2020, 92, 6026
DOI: 10.1021/acs.analchem.0c00298

IMProv: A Resource for Cross-link-Driven Structure Modeling that Accommodates Protein Dynamics

Daniel S. Ziemianowicz, Daniel Saltzberg, Troy Pells, D. Alex Crowder, Christoph Schräder, Morgan Hepburn, Andrej Sali and David C. Schriemer

Molecular & Cellular Proteomics, 2021, 20, 100139
DOI: 10.1016/j.mcpro.2021.100139

A Novel MS-Cleavable Azo Cross-Linker for Peptide Structure Analysis by Free Radical Initiated Peptide Sequencing (FRIPS)

Claudio Iacobucci, Christoph Hage, Mathias Schäfer and Andrea Sinz

J. Am. Soc. Mass Spectrom., 2017, 28, 2039
DOI: 10.1007/s13361-017-1744-6

Real-Time Library Search Increases Cross-Link Identification Depth across All Levels of Sample Complexity

Max Ruwolt, Yi He, Diogo Borges Lima, William Barshop, Johannes Broichhagen, Romain Huguet, Rosa Viner and Fan Liu

Anal. Chem., 2023, 95, 5248
DOI: 10.1021/acs.analchem.2c05141

Cross-linking/mass spectrometry at the crossroads

Lolita Piersimoni and Andrea Sinz

Anal Bioanal Chem, 2020, 412, 5981
DOI: 10.1007/s00216-020-02700-x

Enabling Photoactivated Cross-Linking Mass Spectrometric Analysis of Protein Complexes by Novel MS-Cleavable Cross-Linkers

Craig Gutierrez, Leah J. Salituro, Clinton Yu, Xiaorong Wang, Sadie F. DePeter, Scott D. Rychnovsky and Lan Huang

Molecular & Cellular Proteomics, 2021, 20, 100084
DOI: 10.1016/j.mcpro.2021.100084

Advances in Mass Spectrometry‐Based Structural Proteomics: Development of HDX‐MS and XL‐MS Techniques from Recombinant Protein to Cellular Systems

Valentine V. Courouble, Matthew D. Mann and Patrick R. Griffin

Israel Journal of Chemistry, 2023, 63
DOI: 10.1002/ijch.202300084

Cross-Linking Mass Spectrometry: An Emerging Technology for Interactomics and Structural Biology

Clinton Yu and Lan Huang

Anal. Chem., 2018, 90, 144
DOI: 10.1021/acs.analchem.7b04431

Development of a Novel Sulfoxide-Containing MS-Cleavable Homobifunctional Cysteine-Reactive Cross-Linker for Studying Protein–Protein Interactions

Craig B. Gutierrez, Sarah A. Block, Clinton Yu, Stephanie M. Soohoo, Alexander S. Huszagh, Scott D. Rychnovsky and Lan Huang

Anal. Chem., 2018, 90, 7600
DOI: 10.1021/acs.analchem.8b01287

Developing a new cleavable crosslinker reagent for in-cell crosslinking

Fränze Müller, Bogdan R. Brutiu, Iakovos Saridakis, Thomas Leischner, Micha J. Birklbauer, Manuel Matzinger, Mathias Madalinski, Thomas Lendl, Saad Shaaban, Viktoria Dorfer, Nuno Maulide and Karl Mechtler

Commun Chem, 2025, 8
DOI: 10.1038/s42004-025-01568-1