scholarly journals Morpheus Spectral Counter: A computational tool for label-free quantitative mass spectrometry using the Morpheus search engine

PROTEOMICS ◽  
2016 ◽  
Vol 16 (6) ◽  
pp. 920-924 ◽  
Author(s):  
David C. Gemperline ◽  
Mark Scalf ◽  
Lloyd M. Smith ◽  
Richard D. Vierstra
Keyword(s):  
Mass Spectrometry ◽  
Search Engine ◽  
Label Free ◽  
Computational Tool ◽  
Quantitative Mass Spectrometry

scholarly journals Label-Free Quantitative Mass Spectrometry Reveals Novel Pathways Involved in LL-37 Expression

2013 ◽  
Vol 6 (3) ◽  
pp. 365-376 ◽  
Author(s):  
Andreas Cederlund ◽  
Frank Nylén ◽  
Erica Miraglia ◽  
Peter Bergman ◽  
Gudmundur H. Gudmundsson ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Label Free ◽  
Quantitative Mass Spectrometry

Less label, more free: Approaches in label-free quantitative mass spectrometry

PROTEOMICS ◽  
2011 ◽  
Vol 11 (4) ◽  
pp. 535-553 ◽  
Author(s):  
Karlie A. Neilson ◽  
Naveid A. Ali ◽  
Sridevi Muralidharan ◽  
Mehdi Mirzaei ◽  
Michael Mariani ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Label Free ◽  
Quantitative Mass Spectrometry

scholarly journals Stoichiometry of chromatin-associated protein complexes revealed by label-free quantitative mass spectrometry-based proteomics

2012 ◽  
Vol 41 (1) ◽  
pp. e28-e28 ◽  
Author(s):  
Arne H. Smits ◽  
Pascal W. T. C. Jansen ◽  
Ina Poser ◽  
Anthony A. Hyman ◽  
Michiel Vermeulen
Keyword(s):  
Mass Spectrometry ◽  
Protein Complexes ◽  
Label Free ◽  
Quantitative Mass Spectrometry

scholarly journals Issues and Applications in Label-Free Quantitative Mass Spectrometry

2013 ◽  
Vol 2013 ◽  
pp. 1-13 ◽  
Author(s):  
Xianyin Lai ◽  
Lianshui Wang ◽  
Frank A. Witzmann
Keyword(s):  
Mass Spectrometry ◽  
Protein Quantification ◽  
Area Measurement ◽  
Label Free ◽  
Quantitative Mass Spectrometry ◽  
Differential Protein Expression ◽  
Membrane Proteomics ◽  
Complex Protein ◽  
Tissue Proteomics

To address the challenges associated with differential expression proteomics, label-free mass spectrometric protein quantification methods have been developed as alternatives to array-based, gel-based, and stable isotope tag or label-based approaches. In this paper, we focus on the issues associated with label-free methods that rely on quantitation based on peptide ion peak area measurement. These issues include chromatographic alignment, peptide qualification for quantitation, and normalization. In addressing these issues, we present various approaches, assembled in a recently developed label-free quantitative mass spectrometry platform, that overcome these difficulties and enable comprehensive, accurate, and reproducible protein quantitation in highly complex protein mixtures from experiments with many sample groups. As examples of the utility of this approach, we present a variety of cases where the platform was applied successfully to assess differential protein expression or abundance in body fluids, in vitro nanotoxicology models, tissue proteomics in genetic knock-in mice, and cell membrane proteomics.

scholarly journals Direct Identification of Functional Amyloid Proteins by Label-Free Quantitative Mass Spectrometry

Biomolecules ◽  
2017 ◽  
Vol 7 (4) ◽  
pp. 58 ◽  
Author(s):  
Heidi N. Danielsen ◽  
Susan H. Hansen ◽  
Florian-Alexander Herbst ◽  
Henrik Kjeldal ◽  
Allan Stensballe ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Label Free ◽  
Amyloid Proteins ◽  
Quantitative Mass Spectrometry ◽  
Direct Identification ◽  
Functional Amyloid

Strategies in relative and absolute quantitative mass spectrometry based proteomics

2017 ◽  
Vol 398 (5-6) ◽  
pp. 687-699 ◽  
Author(s):  
Claudia Lindemann ◽  
Nikolas Thomanek ◽  
Franziska Hundt ◽  
Thilo Lerari ◽  
Helmut E. Meyer ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Experimental Studies ◽  
Olfactory Receptors ◽  
Absolute Quantification ◽  
Relative Quantification ◽  
Label Free ◽  
Quantitative Mass Spectrometry ◽  
Proteome Coverage ◽  
Sensory Cilia ◽  
Core Components

Abstract Quantitative mass spectrometry approaches are used for absolute and relative quantification in global proteome studies. To date, relative and absolute quantification techniques are available that differ in quantification accuracy, proteome coverage, complexity and robustness. This review focuses on most common relative or absolute quantification strategies exemplified by three experimental studies. A label-free relative quantification approach was performed for the investigation of the membrane proteome of sensory cilia to the depth of olfactory receptors in Mus musculus. A SILAC-based relative quantification approach was successfully applied for the identification of core components and transient interactors of the peroxisomal importomer in Saccharomyces cerevisiae. Furthermore, AQUA using stable isotopes was exemplified to unraveling the prenylome influenced by novel prenyltransferase inhibitors. Characteristic enrichment and fragmentation strategies for a robust quantification of the prenylome are also summarized.

scholarly journals Monitoring storage induced changes in the platelet proteome employing label free quantitative mass spectrometry

2017 ◽  
Vol 7 (1) ◽  
Author(s):  
Maaike Rijkers ◽  
Bart L. van den Eshof ◽  
Pieter F. van der Meer ◽  
Floris P. J. van Alphen ◽  
Dirk de Korte ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Label Free ◽  
Quantitative Mass Spectrometry ◽  
Platelet Proteome ◽  
Induced Changes

Analysis of the Plasmodium falciparum proteasome using Blue Native PAGE and label-free quantitative mass spectrometry

Amino Acids ◽  
2012 ◽  
Vol 43 (3) ◽  
pp. 1119-1129 ◽  
Author(s):  
Nicole Sessler ◽  
Karsten Krug ◽  
Alfred Nordheim ◽  
Benjamin Mordmüller ◽  
Boris Macek
Keyword(s):  
Mass Spectrometry ◽  
Plasmodium Falciparum ◽  
Label Free ◽  
Quantitative Mass Spectrometry ◽  
Native Page ◽  
Blue Native Page ◽  
Blue Native
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