A Newin VivoCross-linking Mass Spectrometry Platform to Define Protein–Protein Interactions in Living Cells

Developing New Isotope-Coded Mass Spectrometry-Cleavable Cross-Linkers for Elucidating Protein Structures

(2014) Clinton Yu et al.   ANALYTICAL CHEMISTRY

Chemical cross-linking/mass spectrometry targeting acidic residues in proteins and protein complexes

(2014) Alexander Leitner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Protein Interactions, Post-translational Modifications and Topologies in Human Cells

(2013) Juan D. Chavez et al.   MOLECULAR & CELLULAR PROTEOMICS

Matching Cross-linked Peptide Spectra: Only as Good as the Worse Identification

(2013) Michael J. Trnka et al.   MOLECULAR & CELLULAR PROTEOMICS

Temporal regulation of EGF signalling networks by the scaffold protein Shc1

(2013) Yong Zheng et al.   NATURE

Architecture of the large subunit of the mammalian mitochondrial ribosome

(2013) Basil J. Greber et al.   NATURE

Quantifying protein interaction dynamics by SWATH mass spectrometry: application to the 14-3-3 system

(2013) Ben C Collins et al.   NATURE METHODS

Mapping differential interactomes by affinity purification coupled with data-independent mass spectrometry acquisition

(2013) Jean-Philippe Lambert et al.   NATURE METHODS

High-resolution network biology: connecting sequence with function

(2013) Colm J. Ryan et al.   NATURE REVIEWS GENETICS

Reactivity of Biarylazacyclooctynones in Copper-Free Click Chemistry

(2012) Chelsea G. Gordon et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Mapping the Structural Topology of the Yeast 19S Proteasomal Regulatory Particle Using Chemical Cross-linking and Probabilistic Modeling

(2012) Athit Kao et al.   MOLECULAR & CELLULAR PROTEOMICS

Mapping the Protein Interaction Network of the Human COP9 Signalosome Complex Using a Label-free QTAX Strategy

(2012) Lei Fang et al.   MOLECULAR & CELLULAR PROTEOMICS

Complete subunit architecture of the proteasome regulatory particle

(2012) Gabriel C. Lander et al.   NATURE

False discovery rate estimation for cross-linked peptides identified by mass spectrometry

(2012) Thomas Walzthoeni et al.   NATURE METHODS

Identification of cross-linked peptides from complex samples

(2012) Bing Yang et al.   NATURE METHODS

Molecular architecture of the 26S proteasome holocomplex determined by an integrative approach

(2012) K. Lasker et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Near-atomic resolution structural model of the yeast 26S proteasome

(2012) F. Beck et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural Probing of a Protein Phosphatase 2A Network by Chemical Cross-Linking and Mass Spectrometry

(2012) F. Herzog et al.   SCIENCE

The Molecular Architecture of the Eukaryotic Chaperonin TRiC/CCT

(2012) Alexander Leitner et al.   STRUCTURE

An Integrated Chemical Cross-linking and Mass Spectrometry Approach to Study Protein Complex Architecture and Function

(2011) Jie Luo et al.   MOLECULAR & CELLULAR PROTEOMICS

Cleavable Cross-Linker for Protein Structure Analysis: Reliable Identification of Cross-Linking Products by Tandem MS

(2010) Mathias Q. Müller et al.   ANALYTICAL CHEMISTRY

ICC-CLASS: isotopically-coded cleavable crosslinking analysis software suite

(2010) Evgeniy V Petrotchenko et al.   BMC BIOINFORMATICS

Recent advances in charting protein–protein interaction: mass spectrometry-based approaches

(2010) Anne-Claude Gavin et al.   CURRENT OPINION IN BIOTECHNOLOGY

Architecture of the RNA polymerase II–TFIIF complex revealed by cross-linking and mass spectrometry

(2010) Zhuo Angel Chen et al.   EMBO JOURNAL

Characterization of Cell Cycle Specific Protein Interaction Networks of the Yeast 26S Proteasome Complex by the QTAX Strategy

(2010) Robyn M. Kaake et al.   JOURNAL OF PROTEOME RESEARCH

xComb: A Cross-Linked Peptide Database Approach to Protein−Protein Interaction Analysis

(2010) Alexandre Panchaud et al.   JOURNAL OF PROTEOME RESEARCH

Rapid Cu-Free Click Chemistry with Readily Synthesized Biarylazacyclooctynones

(2010) John C. Jewett et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Selective enrichment and identification of azide-tagged cross-linked peptides using chemical ligation and mass spectrometry

(2010) Danielle Vellucci et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Development of a Novel Cross-linking Strategy for Fast and Accurate Identification of Cross-linked Peptides of Protein Complexes

(2010) Athit Kao et al.   MOLECULAR & CELLULAR PROTEOMICS

Probing Native Protein Structures by Chemical Cross-linking, Mass Spectrometry, and Bioinformatics

(2010) Alexander Leitner et al.   MOLECULAR & CELLULAR PROTEOMICS

Identification of Cross-Linked Peptides after Click-Based Enrichment Using Sequential Collision-Induced Dissociation and Electron Transfer Dissociation Tandem Mass Spectrometry

(2009) Saiful M. Chowdhury et al.   ANALYTICAL CHEMISTRY

Defining the Human Deubiquitinating Enzyme Interaction Landscape

(2009) Mathew E. Sowa et al.   CELL

Selective Enrichment of Azide-Containing Peptides from Complex Mixtures

(2009) Merel A. Nessen et al.   JOURNAL OF PROTEOME RESEARCH

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Ionic Reagent for Controlling the Gas-Phase Fragmentation Reactions of Cross-Linked Peptides

(2008) Yali Lu et al.   ANALYTICAL CHEMISTRY

Utility of formaldehyde cross-linking and mass spectrometry in the study of protein–protein interactions

(2008) Brent W. Sutherland et al.   JOURNAL OF MASS SPECTROMETRY

In Vivo Identification of the Outer Membrane Protein OmcA−MtrC Interaction Network inShewanella oneidensisMR-1 Cells Using Novel Hydrophobic Chemical Cross-Linkers

(2008) Haizhen Zhang et al.   JOURNAL OF PROTEOME RESEARCH

BiPS, a Photocleavable, Isotopically Coded, Fluorescent Cross-linker for Structural Proteomics

(2008) Evgeniy V. Petrotchenko et al.   MOLECULAR & CELLULAR PROTEOMICS

Erratum: Corrigendum: Identification of cross-linked peptides from large sequence databases

(2008) Oliver Rinner et al.   NATURE METHODS

Characterization of the proteasome interaction network using a QTAX-based tag-team strategy and protein interaction network analysis

(2008) C. Guerrero et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA