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Cleavable Cross-Linker for Protein Structure Analysis: Reliable Identification of Cross-Linking Products by Tandem MS
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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Tandem mass spectrometry: dissociation of ions by collisional activation
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Isotope‐Labeled Photoaffinity Reagents and Mass Spectrometry To Identify Protein–Ligand Interactions
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Comparison of LID versus CID activation modes in tandem mass spectrometry of peptides
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Collision‐induced dissociative chemical cross‐linking reagent for protein structure characterization: applied Edman chemistry in the gas phase
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Chemical cross‐linking and mass spectrometry for mapping three‐dimensional structures of proteins and protein complexes
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The Orbitrap: a new mass spectrometer
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Chemical cross‐linking and mass spectrometry to map three‐dimensional protein structures and protein–protein interactions
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Electrospray: From ions in solution to ions in the gas phase, what we know now
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Linear quadrupoles in mass spectrometry
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Amino acid sequence of a protease inhibitor isolated from Sarcophaga bullata determined by mass spectrometry
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Annexin A2/P11 interaction: New insights into annexin A2 tetramer structure by chemical crosslinking, high‐resolution mass spectrometry, and computational modeling
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Mapping low‐resolution three‐dimensional protein structures using chemical cross‐linking and Fourier transform ion‐cyclotron resonance mass spectrometry
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Tandem mass spectrometry acquisition approaches to enhance identification of protein‐protein interactions using low‐energy collision‐induced dissociative chemical crosslinking reagents
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Chances and pitfalls of chemical cross-linking with amine-reactive N-hydroxysuccinimide esters
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Mass spectrometric detection of affinity purified crosslinked presented
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Mapping protein interfaces by a trifunctional cross-linker combined with MALDI-TOF and ESI-FTICR mass spectrometry
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Isotope-labeled cross-linkers and fourier transform ion cyclotron resonance mass spectrometry for structural analysis of a protein/peptide complex
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Expression and purification of the ligand-binding domain of peroxisome proliferator-activated receptor alpha (PPARα)
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TFA-NHS as bifunctional protecting agent: simultaneous protection and activation of amino carboxylic acids
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GPMAW – a software tool for analyzing proteins and peptides
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A new crosslinker for mass spectrometric analysis of the quaternary structure of protein complexes
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A two-dimensional quadrupole ion trap mass spectrometer
inferredcites →https://doi.org/10.1016/s1044-0305(03)00327-1openalex-snapshot
MS2Assign, automated assignment and nomenclature of tandem mass spectra of chemically crosslinked peptides
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Identification of Cross-Linked Peptides for Protein Interaction Studies Using Mass Spectrometry and18O Labeling
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Mass Spectrometry Identifiable Cross-Linking Strategy for Studying Protein−Protein Interactions
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Collision-Induced Dissociative Chemical Cross-Linking Reagents and Methodology: Applications to Protein Structural Characterization Using Tandem Mass Spectrometry Analysis
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The Characteristics of Peptide Collision-Induced Dissociation Using a High-Performance MALDI-TOF/TOF Tandem Mass Spectrometer
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Identification and Mapping of Protein−Protein Interactions by a Combination of Cross-Linking, Cleavage, and Proteomics
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Structural Insights into the Calmodulin−Munc13 Interaction Obtained by Cross-Linking and Mass Spectrometry
inferredcites →https://doi.org/10.1021/ja961958qopenalex-snapshot
Molecular Symmetry and the Design of Molecular Solids: The Oxalamide Functionality as a Persistent Hydrogen Bonding Unit
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An Innovative Method To Study Target Protein−Drug Interactions by Mass Spectrometry
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High throughput protein fold identification by using experimental constraints derived from intramolecular cross-links and mass spectrometry
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Protein sequencing by tandem mass spectrometry.
inferredcites →https://doi.org/10.1074/jbc.m207370200openalex-snapshot
Characterization of an Antagonist Interleukin-6 Dimer by Stable Isotope Labeling, Cross-linking, and Mass Spectrometry
inferredcites →https://doi.org/10.1074/mcp.t400016-mcp200openalex-snapshot
Isotopically Coded Cleavable Cross-linker for Studying Protein-Protein Interaction and Protein Complexes
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Computer‐assisted mass spectrometric analysis of naturally occurring and artificially introduced cross‐links in proteins and protein complexes
inferredcites →https://doi.org/10.1126/science.2675315openalex-snapshot
Electrospray Ionization for Mass Spectrometry of Large Biomolecules
inferredcites →https://doi.org/10.1255/ejms.748openalex-snapshot
Mapping Protein Interfaces by Chemical Cross-Linking and Fourier Transform Ion Cyclotron Resonance Mass Spectrometry: Application to a Calmodulin/Adenylyl Cyclase 8 Peptide Complex
inferredcites →https://doi.org/10.2174/138620709787315436openalex-snapshot
High-Energy Collision Induced Dissociation of Biomolecules: MALDITOF/ RTOF Mass Spectrometry in Comparison to Tandem Sector Mass Spectrometry
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Optimized Fragmentation Regime for Diazirine Photo-Cross-Linked Peptides
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Mango: A General Tool for Collision Induced Dissociation-Cleavable Cross-Linked Peptide Identification
inferred← citeshttps://doi.org/10.1021/acs.analchem.8b00737openalex-snapshot
eXL-MS: An Enhanced Cross-Linking Mass Spectrometry Workflow To Study Protein Complexes
inferred← citeshttps://doi.org/10.1021/acs.analchem.8b01287openalex-snapshot
Development of a Novel Sulfoxide-Containing MS-Cleavable Homobifunctional Cysteine-Reactive Cross-Linker for Studying Protein–Protein Interactions
inferred← citeshttps://doi.org/10.1021/acs.analchem.8b01525openalex-snapshot
Characterization of the Interaction between Arginine Methyltransferase Hmt1 and Its Substrate Npl3: Use of Multiple Cross-Linkers, Mass Spectrometric Approaches, and Software Platforms
inferred← citeshttps://doi.org/10.1021/acs.analchem.8b02319openalex-snapshot
Optimization Workflow for the Analysis of Cross-Linked Peptides Using a Quadrupole Time-of-Flight Mass Spectrometer
inferred← citeshttps://doi.org/10.1021/acs.analchem.8b02593openalex-snapshot
Simplified Protocol for Cross-linking Mass Spectrometry Using the MS-Cleavable Cross-linker DSBU with Efficient Cross-link Identification
inferred← citeshttps://doi.org/10.1021/acs.analchem.9b02372openalex-snapshot
A Simple Cross-Linking/Mass Spectrometry Workflow for Studying System-wide Protein Interactions
inferred← citeshttps://doi.org/10.1021/acs.analchem.9b02986openalex-snapshot
Establishing Signature Fragments for Identification and Sequencing of Dityrosine Cross-Linked Peptides Using Ultraviolet Photodissociation Mass Spectrometry
inferred← citeshttps://doi.org/10.1021/acs.analchem.9b03975openalex-snapshot
Cross-linking Mass Spectrometry Analysis of the Yeast Nucleus Reveals Extensive Protein–Protein Interactions Not Detected by Systematic Two-Hybrid or Affinity Purification-Mass Spectrometry
inferred← citeshttps://doi.org/10.1021/acs.biochem.3c00245openalex-snapshot
Probing Protein Dynamics in Neuronal Nitric Oxide Synthase by Quantitative Cross-Linking Mass Spectrometry
inferred← citeshttps://doi.org/10.1021/acs.chemrev.1c00217openalex-snapshot
Characterizing Endogenous Protein Complexes with Biological Mass Spectrometry
inferred← citeshttps://doi.org/10.1021/acs.chemrev.1c00223openalex-snapshot
In-Cell Labeling and Mass Spectrometry for Systems-Level Structural Biology
inferred← citeshttps://doi.org/10.1021/acs.chemrev.1c00786openalex-snapshot
Cross-Linking Mass Spectrometry for Investigating Protein Conformations and Protein–Protein Interactions─A Method for All Seasons
inferred← citeshttps://doi.org/10.1021/acs.chemrev.9b00815openalex-snapshot
Mass Spectrometry-Based Protein Footprinting for Higher-Order Structure Analysis: Fundamentals and Applications
inferred← citeshttps://doi.org/10.1021/acs.jpcb.3c01305openalex-snapshot
Dimerization of European Robin Cryptochrome 4a
inferred← citeshttps://doi.org/10.1021/acs.jproteome.0c00105openalex-snapshot
Protocol for High-Yield Production of Photo-Leucine-Labeled Proteins in Escherichia coli
inferred← citeshttps://doi.org/10.1021/acs.jproteome.0c00111openalex-snapshot
Use of Multiple Ion Fragmentation Methods to Identify Protein Cross-Links and Facilitate Comparison of Data Interpretation Algorithms
inferred← citeshttps://doi.org/10.1021/acs.jproteome.0c00583openalex-snapshot
Cleavable Cross-Linkers and Mass Spectrometry for the Ultimate Task of Profiling Protein–Protein Interaction Networks in Vivo
inferred← citeshttps://doi.org/10.1021/acs.jproteome.0c01000openalex-snapshot
MS Annika: A New Cross-Linking Search Engine
inferred← citeshttps://doi.org/10.1021/acs.jproteome.0c01004openalex-snapshot
pDeepXL: MS/MS Spectrum Prediction for Cross-Linked Peptide Pairs by Deep Learning
inferred← citeshttps://doi.org/10.1021/acs.jproteome.2c00500openalex-snapshot
Exhaustive Cross-Linking Search with Protein Feedback
inferred← citeshttps://doi.org/10.1021/acs.jproteome.3c00037openalex-snapshot
Comparative Analysis of Chemical Cross-Linking Mass Spectrometry Data Indicates That Protein STY Residues Rarely React with N -Hydroxysuccinimide Ester Cross-Linkers
inferred← citeshttps://doi.org/10.1021/acs.jproteome.3c00325openalex-snapshot
MS Annika 2.0 Identifies Cross-Linked Peptides in MS2–MS3-Based Workflows at High Sensitivity and Specificity
inferred← citeshttps://doi.org/10.1021/acs.jproteome.3c00791openalex-snapshot
RawVegetable 2.0: Refining XL-MS Data Acquisition through Enhanced Quality Control
inferred← citeshttps://doi.org/10.1021/acs.jproteome.3c00816openalex-snapshot
Leveraging Cross-Linking Mass Spectrometry for Modeling Antibody–Antigen Complexes
inferred← citeshttps://doi.org/10.1021/acs.jproteome.6c00388openalex-snapshot
Global Incorporation of a Photo-Cross-Linking Amino Acid to Probe the Protein Interactome under Physiological Conditions
inferred← citeshttps://doi.org/10.1021/acs.jproteome.8b00947openalex-snapshot
Optimized Fragmentation Improves the Identification of Peptides Cross-Linked by MS-Cleavable Reagents
inferred← citeshttps://doi.org/10.1021/acs.jproteome.9b00085openalex-snapshot
Optimized Cross-Linking Mass Spectrometry for in Situ Interaction Proteomics
inferred← citeshttps://doi.org/10.1021/acs.jproteome.9b00189openalex-snapshot
Prediction of an Upper Limit for the Fraction of Interprotein Cross-Links in Large-Scale In Vivo Cross-Linking Studies
inferred← citeshttps://doi.org/10.1021/acscentsci.9b00416openalex-snapshot
PhoX: An IMAC-Enrichable Cross-Linking Reagent
inferred← citeshttps://doi.org/10.1021/acsmeasuresciau.1c00032openalex-snapshot
pH Dependence of Succinimide-Ester-Based Protein Cross-Linking for Structural Mass Spectrometry Applications
inferred← citeshttps://doi.org/10.1021/acsomega.3c03064openalex-snapshot
Mapping Peptide–Protein Interactions by Amine-Reactive Cleavable Photoaffinity Reagents
inferred← citeshttps://doi.org/10.1021/jacsau.3c00199openalex-snapshot
Light-Induced Orthogonal Fragmentation of Crosslinked Peptides
inferred← citeshttps://doi.org/10.1021/jacsau.4c00282openalex-snapshot
Evaluating Imide-Based Mass Spectrometry-Cleavable Cross-Linkers for Structural Proteomics Studies
inferred← citeshttps://doi.org/10.1021/jasms.1c00237openalex-snapshot
Efficient Isothiocyanate Modification of Peptides Facilitates Structural Analysis by Radical-Directed Dissociation
inferred← citeshttps://doi.org/10.1021/jasms.3c00134openalex-snapshot
All-in-One Pseudo-MS3 Method for the Analysis of Gas-Phase Cleavable Protein Crosslinking Reactions
inferred← citeshttps://doi.org/10.1021/jasms.4c00489openalex-snapshot
Development and Characterization of a Fluorinated MS-Cleavable Cross-Linker for Structural Proteomics
inferred← citeshttps://doi.org/10.1021/jasms.9b00008openalex-snapshot
The Isotope-Labeled, MS-Cleavable Cross-Linker Disuccinimidyl Dibutyric Urea for Improved Cross-Linking/Mass Spectrometry Studies
inferred← citeshttps://doi.org/10.1021/jasms.9b00085openalex-snapshot
To Cleave or Not To Cleave in XL-MS?
inferred← citeshttps://doi.org/10.1021/jp512997zopenalex-snapshot
Guided Ion Beam and Computational Studies of the Decomposition of a Model Thiourea Protein Cross-Linker
inferred← citeshttps://doi.org/10.1021/pr400869uopenalex-snapshot
Evaluating the Conformation and Binding Interface of Cap-Binding Proteins and Complexes via Ultraviolet Photodissociation Mass Spectrometry
inferred← citeshttps://doi.org/10.1038/ncomms15473openalex-snapshot
Optimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification
inferred← citeshttps://doi.org/10.1038/nmeth.3603openalex-snapshot
Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry
inferred← citeshttps://doi.org/10.1038/nprot.2017.146openalex-snapshot
Structural prediction of protein models using distance restraints derived from cross-linking mass spectrometry data
inferred← citeshttps://doi.org/10.1038/s41467-018-04139-2openalex-snapshot
Structure and mechanism of the two-component α-helical pore-forming toxin YaxAB
inferred← citeshttps://doi.org/10.1038/s41467-019-11337-zopenalex-snapshot
A high-speed search engine pLink 2 with systematic evaluation for proteome-scale identification of cross-linked peptides
inferred← citeshttps://doi.org/10.1038/s41467-020-14608-2openalex-snapshot
A synthetic peptide library for benchmarking crosslinking-mass spectrometry search engines for proteins and protein complexes
inferred← citeshttps://doi.org/10.1038/s41467-020-15702-1openalex-snapshot
Inter-domain dynamics in the chaperone SurA and multi-site binding to its outer membrane protein clients
inferred← citeshttps://doi.org/10.1038/s41467-022-31701-wopenalex-snapshot
Mimicked synthetic ribosomal protein complex for benchmarking crosslinking mass spectrometry workflows
inferred← citeshttps://doi.org/10.1038/s41467-025-59548-xopenalex-snapshot
Mapping the interaction surface between CaVβ and actin and its role in calcium channel clearance
inferred← citeshttps://doi.org/10.1038/s41467-025-65159-3openalex-snapshot
Conserved hydrophilic checkpoints tune FocA-mediated formate:H+ symport
inferred← citeshttps://doi.org/10.1038/s41467-026-73272-0openalex-snapshot
Inherent MS-cleavability of diazirine photo-cross-links enables residue-level structural analysis
inferred← citeshttps://doi.org/10.1038/s41589-023-01514-zopenalex-snapshot
Enhanced mapping of small-molecule binding sites in cells
inferred← citeshttps://doi.org/10.1038/s41592-020-0959-9openalex-snapshot
Structure-based validation can drastically underestimate error rate in proteome-wide cross-linking mass spectrometry studies
inferred← citeshttps://doi.org/10.1038/s41594-018-0147-0openalex-snapshot
Cross-linking mass spectrometry: methods and applications in structural, molecular and systems biology
inferred← citeshttps://doi.org/10.1038/s41596-018-0068-8openalex-snapshot
A cross-linking/mass spectrometry workflow based on MS-cleavable cross-linkers and the MeroX software for studying protein structures and protein–protein interactions
inferred← citeshttps://doi.org/10.1038/s41596-018-0074-xopenalex-snapshot
Efficient and robust proteome-wide approaches for cross-linking mass spectrometry
inferred← citeshttps://doi.org/10.1038/s41598-020-69313-3openalex-snapshot
Structural analysis of 70S ribosomes by cross-linking/mass spectrometry reveals conformational plasticity
inferred← citeshttps://doi.org/10.1038/s42004-024-01386-xopenalex-snapshot
Proteome-wide non-cleavable crosslink identification with MS Annika 3.0 reveals the structure of the C. elegans Box C/D complex
inferred← citeshttps://doi.org/10.1038/s42004-026-02127-yopenalex-snapshot
Revisiting the p53:Sirt1 interaction in light of controlling p53 acetylation levels
inferred← citeshttps://doi.org/10.1038/s44320-026-00222-9openalex-snapshot
To cleave or not to cleave: a systemic evaluation of DSS versus DSSO for cross-linking mass spectrometry analysis
inferred← citeshttps://doi.org/10.1039/c5cs00048copenalex-snapshot
Developments and recent advancements in the field of endogenous amino acid selective bond forming reactions for bioconjugation
inferred← citeshttps://doi.org/10.1039/c5sc04196aopenalex-snapshot
Cross-linking and other structural proteomics techniques: how chemistry is enabling mass spectrometry applications in structural biology
inferred← citeshttps://doi.org/10.1039/c6ra00423gopenalex-snapshot
An acetal-based polymeric crosslinker with controlled pH-sensitivity
inferred← citeshttps://doi.org/10.1039/c8sc03394copenalex-snapshot
Ubiquitin binds the amyloid β peptide and interferes with its clearance pathways
inferred← citeshttps://doi.org/10.1039/c9sc00893dopenalex-snapshot
A novel mass spectrometry-cleavable, phosphate-based enrichable and multi-targeting protein cross-linker
inferred← citeshttps://doi.org/10.1039/d0mo00181copenalex-snapshot
Cleavable linkers and their application in MS-based target identification
inferred← citeshttps://doi.org/10.1039/d1cc05529aopenalex-snapshot
Bottom-up/cross-linking mass spectrometry via simplified sample processing on anion-exchange solid-phase extraction spin column
inferred← citeshttps://doi.org/10.1042/bcj20250372openalex-snapshot
Oligomeric assemblies of plant biotin carboxylase revealed by cryo-EM and cross-linking
inferred← citeshttps://doi.org/10.1042/ebc20220168openalex-snapshot
Cross-linking mass spectrometry for mapping protein complex topologies in situ
inferred← citeshttps://doi.org/10.1071/ch13164openalex-snapshot
Chemical Cross-linking and Mass Spectrometry for the Structural Analysis of Protein Assemblies
inferred← citeshttps://doi.org/10.1074/jbc.ra118.005432openalex-snapshot
A multipronged approach unravels unprecedented protein–protein interactions in the human 2-oxoglutarate dehydrogenase multienzyme complex
inferred← citeshttps://doi.org/10.1074/mcp.m111.008318openalex-snapshot
An Integrated Chemical Cross-linking and Mass Spectrometry Approach to Study Protein Complex Architecture and Function
inferred← citeshttps://doi.org/10.1074/mcp.m114.042630openalex-snapshot
A New in Vivo Cross-linking Mass Spectrometry Platform to Define Protein–Protein Interactions in Living Cells
inferred← citeshttps://doi.org/10.1074/mcp.m115.049296openalex-snapshot
A Study into the Collision-induced Dissociation (CID) Behavior of Cross-Linked Peptides
inferred← citeshttps://doi.org/10.1074/mcp.ra118.000924openalex-snapshot
Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei
inferred← citeshttps://doi.org/10.1074/mcp.ra119.001839openalex-snapshot
Improving Identification of In-organello Protein-Protein Interactions Using an Affinity-enrichable, Isotopically Coded, and Mass Spectrometry-cleavable Chemical Crosslinker
inferred← citeshttps://doi.org/10.1074/mcp.ra120.002028openalex-snapshot
A Cross-linking Mass Spectrometry Approach Defines Protein Interactions in Yeast Mitochondria
inferred← citeshttps://doi.org/10.1074/mcp.tir119.001847openalex-snapshot
MaXLinker: Proteome-wide Cross-link Identifications with High Specificity and Sensitivity
inferred← citeshttps://doi.org/10.1080/14789450.2017.1362336openalex-snapshot
Protein-protein cross-linking and human health: the challenge of elucidating with mass spectrometry
inferred← citeshttps://doi.org/10.1093/bioinformatics/bty526openalex-snapshot
Xolik: finding cross-linked peptides with maximum paired scores in linear time
inferred← citeshttps://doi.org/10.1093/nar/gkaa277openalex-snapshot
Alternative proteins are functional regulators in cell reprogramming by PKA activation
inferred← citeshttps://doi.org/10.1093/nar/gkaa775openalex-snapshot
Molecular determinants of MED1 interaction with the DNA bound VDR–RXR heterodimer
inferred← citeshttps://doi.org/10.1093/nar/gkad175openalex-snapshot
Biochemical characterisation of Mer3 helicase interactions and the protection of meiotic recombination intermediates
inferred← citeshttps://doi.org/10.1093/nar/gkz570openalex-snapshot
Binding of eIF3 in complex with eIF5 and eIF1 to the 40S ribosomal subunit is accompanied by dramatic structural changes
inferred← citeshttps://doi.org/10.1101/2021.02.03.429618openalex-snapshot
Understanding of the 2-oxoglutarate dehydrogenase and 2-oxoadipate dehydrogenase assembly with the E2o core relevant to a hybrid complex formation
inferred← citeshttps://doi.org/10.1101/2021.11.02.466878openalex-snapshot
Reconstitution of 3’-processing of mammalian pre-mRNA reveals a central role of RBBP6
inferred← citeshttps://doi.org/10.1101/2022.12.27.522012openalex-snapshot
Cross-link scrambling in peptide pairs
inferred← citeshttps://doi.org/10.1101/2023.01.26.525676openalex-snapshot
Cleavable crosslinkers redefined by novel MS3-trigger algorithm
inferred← citeshttps://doi.org/10.1101/2023.04.11.536350openalex-snapshot
Dimerisation of European robin cryptochrome 4a
inferred← citeshttps://doi.org/10.1101/2024.03.20.585841openalex-snapshot
Searching Post-translational Modifications in Cross-linking Mass Spectrometry Data
inferred← citeshttps://doi.org/10.1101/2024.03.29.587196openalex-snapshot
Twisting Urea- to Imide-Based Mass Spectrometry-Cleavable Cross-Linkers Enables Affinity Tagging
inferred← citeshttps://doi.org/10.1101/821447openalex-snapshot
A synthetic peptide library for benchmarking crosslinking mass spectrometry search engines
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