A Dual Pressure Linear Ion Trap Orbitrap Instrument with Very High Sequencing Speed
Jesper V. Olsen,Jae C. Schwartz,Jens Griep-Raming,Michael L. Nielsen,Eugen Damoc,Eduard Denisov,Oliver Lange,Philip M. Remes,Dennis M. Taylor,Maurizio Splendore,Eloy R. Wouters,Michael W. Senko,Alexander Makarov,Matthias Mann,Stevan Horning +14 more
TLDR
A next generation LTQ Orbitrap system termed Velos is described, with significantly increased sensitivity and scan speed, and an improved higher-energy collisional dissociation cell with increased ion extraction capabilities was implemented.About:
This article is published in Molecular & Cellular Proteomics.The article was published on 2009-12-01 and is currently open access. It has received 485 citations till now. The article focuses on the topics: Ion trap & Orbitrap.read more
Citations
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Parallel Reaction Monitoring for High Resolution and High Mass Accuracy Quantitative, Targeted Proteomics
TL;DR: This work proposes a new targeted proteomics paradigm centered on the use of next generation, quadrupole-equipped high resolution and accurate mass instruments: parallel reaction monitoring (PRM), and suggests that PRM will be a promising new addition to the quantitative proteomics toolbox.
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Deep proteome and transcriptome mapping of a human cancer cell line
Nagarjuna Nagaraj,Jacek R. Wisniewski,Tamar Geiger,Juergen Cox,Martin Kircher,Janet Kelso,Svante Pääbo,Matthias Mann +7 more
TL;DR: Comparisons of the proteome and the transcriptome, and analysis of protein complex databases and GO categories, suggest that deep coverage of the functional transcriptome andThe proteome of a single cell type is achieved.
Journal ArticleDOI
A Proteome-wide, Quantitative Survey of In Vivo Ubiquitylation Sites Reveals Widespread Regulatory Roles
Sebastian A. Wagner,Petra Beli,Brian T. Weinert,Michael L. Nielsen,Juergen Cox,Matthias Mann,Chunaram Choudhary +6 more
TL;DR: This work combines single-step immunoenrichment of ubiquitylated peptides with peptide fractionation and high-resolution mass spectrometry to investigate endogenous ubiquitylation sites, and for the first time demonstrates proteome-wide, site-specific quantification of endogenous putative ubiquitylations sites.
Journal ArticleDOI
Precision Mapping of an In Vivo N-Glycoproteome Reveals Rigid Topological and Sequence Constraints
TL;DR: A "filter aided sample preparation" (FASP)-based method in which glycopeptides are enriched by binding to lectins on the top of a filter and mapped 6367 N-glycosylation sites on 2352 proteins in four mouse tissues and blood plasma using high-accuracy mass spectrometry reveals that the sites always orient toward the extracellular space or toward the lumen of ER, Golgi, lysosome, or peroxisome.
Journal ArticleDOI
Mass Spectrometry-based Proteomics Using Q Exactive, a High-performance Benchtop Quadrupole Orbitrap Mass Spectrometer
Annette Michalski,Eugen Damoc,Jan Peter Hauschild,Oliver Lange,Andreas Wieghaus,Alexander Makarov,Nagarjuna Nagaraj,Juergen Cox,Matthias Mann,Stevan Horning +9 more
TL;DR: High performance in a robust benchtop format together with the ability to perform complex multiplexed scan modes make the Q Exactive an exciting new instrument for the proteomics and general analytical communities.
References
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MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification.
Jiirgen Cox,Matthias Mann +1 more
TL;DR: MaxQuant, an integrated suite of algorithms specifically developed for high-resolution, quantitative MS data, detects peaks, isotope clusters and stable amino acid isotope–labeled (SILAC) peptide pairs as three-dimensional objects in m/z, elution time and signal intensity space and achieves mass accuracy in the p.p.b. range.
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Ruedi Aebersold,Matthias Mann +1 more
TL;DR: The ability of mass spectrometry to identify and, increasingly, to precisely quantify thousands of proteins from complex samples can be expected to impact broadly on biology and medicine.
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Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics.
Shao En Ong,Blagoy Blagoev,Irina Kratchmarova,Dan B. Kristensen,Hanno Steen,Akhilesh Pandey,Matthias Mann +6 more
TL;DR: SILAC is a simple, inexpensive, and accurate procedure that can be used as a quantitative proteomic approach in any cell culture system and is applied to the relative quantitation of changes in protein expression during the process of muscle cell differentiation.
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Stop and Go extraction tips for matrix-assisted laser desorption/ionization, nanoelectrospray, and lc/ms sample pretreatment in proteomics
TL;DR: A novel procedure in which a very small disk of beads embedded in a Teflon meshwork is placed as a microcolumn into pipet tips, finding that the Stage system is well-suited as a universal sample preparation system for proteomics.
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TL;DR: Recent advances in mass spectrometry instrumentation are reviewed in the context of current and emerging research strategies in protein science.
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