Literature DB >> 22669653

Selected reaction monitoring-based proteomics: workflows, potential, pitfalls and future directions.

Paola Picotti1, Ruedi Aebersold.   

Abstract

Selected reaction monitoring (SRM) is a targeted mass spectrometry technique that is emerging in the field of proteomics as a complement to untargeted shotgun methods. SRM is particularly useful when predetermined sets of proteins, such as those constituting cellular networks or sets of candidate biomarkers, need to be measured across multiple samples in a consistent, reproducible and quantitatively precise manner. Here we describe how SRM is applied in proteomics, review recent advances, present selected applications and provide a perspective on the future of this powerful technology.

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Year:  2012        PMID： 22669653     DOI： 10.1038/nmeth.2015

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


  113 in total

1.  Options and considerations when selecting a quantitative proteomics strategy.

Authors:  Bruno Domon; Ruedi Aebersold
Journal:  Nat Biotechnol       Date:  2010-07-09       Impact factor: 54.908

Review 2.  Protein biomarker discovery and validation: the long and uncertain path to clinical utility.

Authors:  Nader Rifai; Michael A Gillette; Steven A Carr
Journal:  Nat Biotechnol       Date:  2006-08       Impact factor: 54.908

3.  GAPP: a fully automated software for the confident identification of human peptides from tandem mass spectra.

Authors:  Ian Shadforth; Weibing Xu; Daniel Crowther; Conrad Bessant
Journal:  J Proteome Res       Date:  2006-10       Impact factor: 4.466

4.  Coupled global and targeted proteomics of human embryonic stem cells during induced differentiation.

Authors:  Anastasia K Yocum; Theresa E Gratsch; Nancy Leff; John R Strahler; Christie L Hunter; Angela K Walker; George Michailidis; Gilbert S Omenn; K Sue O'Shea; Philip C Andrews
Journal:  Mol Cell Proteomics       Date:  2008-02-26       Impact factor: 5.911

5.  Multiple reaction monitoring-based, multiplexed, absolute quantitation of 45 proteins in human plasma.

Authors:  Michael A Kuzyk; Derek Smith; Juncong Yang; Tyra J Cross; Angela M Jackson; Darryl B Hardie; N Leigh Anderson; Christoph H Borchers
Journal:  Mol Cell Proteomics       Date:  2009-05-01       Impact factor: 5.911

6.  Automated detection of inaccurate and imprecise transitions in peptide quantification by multiple reaction monitoring mass spectrometry.

Authors:  Susan E Abbatiello; D R Mani; Hasmik Keshishian; Steven A Carr
Journal:  Clin Chem       Date:  2009-12-18       Impact factor: 8.327

7.  Bioanalytical high-throughput selected reaction monitoring-LC/MS determination of selected estrogen receptor modulators in human plasma: 2000 samples/day.

Authors:  J Zweigenbaum; J Henion
Journal:  Anal Chem       Date:  2000-06-01       Impact factor: 6.986

8.  Accurate quantification of cardiovascular biomarkers in serum using Protein Standard Absolute Quantification (PSAQ™) and selected reaction monitoring.

Authors:  Céline Huillet; Annie Adrait; Dorothée Lebert; Guillaume Picard; Mathieu Trauchessec; Mathilde Louwagie; Alain Dupuis; Luc Hittinger; Bijan Ghaleh; Philippe Le Corvoisier; Michel Jaquinod; Jérôme Garin; Christophe Bruley; Virginie Brun
Journal:  Mol Cell Proteomics       Date:  2011-11-11       Impact factor: 5.911

9.  MaRiMba: a software application for spectral library-based MRM transition list assembly.

Authors:  Carly A Sherwood; Ashley Eastham; Lik Wee Lee; Amelia Peterson; Jimmy K Eng; David Shteynberg; Luis Mendoza; Eric W Deutsch; Jenni Risler; Natalie Tasman; Ruedi Aebersold; Henry Lam; Daniel B Martin
Journal:  J Proteome Res       Date:  2009-10       Impact factor: 4.466

10.  High sensitivity detection of plasma proteins by multiple reaction monitoring of N-glycosites.

Authors:  Jianru Stahl-Zeng; Vinzenz Lange; Reto Ossola; Katrin Eckhardt; Wilhelm Krek; Ruedi Aebersold; Bruno Domon
Journal:  Mol Cell Proteomics       Date:  2007-07-20       Impact factor: 5.911
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  410 in total

1.  Multiple Reaction Monitoring Enables Precise Quantification of 97 Proteins in Dried Blood Spots.

Authors:  Andrew G Chambers; Andrew J Percy; Juncong Yang; Christoph H Borchers
Journal:  Mol Cell Proteomics       Date:  2015-09-04       Impact factor: 5.911

2.  Selected Reaction Monitoring Mass Spectrometry for Absolute Protein Quantification.

Authors:  Nathan P Manes; Jessica M Mann; Aleksandra Nita-Lazar
Journal:  J Vis Exp       Date:  2015-08-17       Impact factor: 1.355

3.  Expression of factor H binding protein in meningococcal strains can vary at least 15-fold and is genetically determined.

Authors:  Massimiliano Biagini; Marco Spinsanti; Gabriella De Angelis; Sara Tomei; Ilaria Ferlenghi; Maria Scarselli; Fabio Rigat; Nicola Messuti; Alessia Biolchi; Alessandro Muzzi; Giulia Anderloni; Brunella Brunelli; Elena Cartocci; Francesca Buricchi; Chiara Tani; Maria Stella; Monica Moschioni; Elena Del Tordello; Annalisa Colaprico; Silvana Savino; Marzia M Giuliani; Isabel Delany; Mariagrazia Pizza; Paolo Costantino; Nathalie Norais; Rino Rappuoli; Vega Masignani
Journal:  Proc Natl Acad Sci U S A       Date:  2016-02-17       Impact factor: 11.205

4.  HOTMAQ: A Multiplexed Absolute Quantification Method for Targeted Proteomics.

Authors:  Xiaofang Zhong; Qinying Yu; Fengfei Ma; Dustin C Frost; Lei Lu; Zhengwei Chen; Henrik Zetterberg; Cynthia Carlsson; Ozioma Okonkwo; Lingjun Li
Journal:  Anal Chem       Date:  2019-01-18       Impact factor: 6.986

5.  Targeted Proteomic Analyses of Histone H4 Acetylation Changes Associated with Homologous-Recombination-Deficient High-Grade Serous Ovarian Carcinomas.

Authors:  Stefani N Thomas; Lijun Chen; Yang Liu; Naseruddin Höti; Hui Zhang
Journal:  J Proteome Res       Date:  2017-09-14       Impact factor: 4.466

Review 6.  Heterogeneity and specialized functions of translation machinery: from genes to organisms.

Authors:  Naomi R Genuth; Maria Barna
Journal:  Nat Rev Genet       Date:  2018-07       Impact factor: 53.242

7.  Identification of Vitamin D3 Oxidation Products Using High-Resolution and Tandem Mass Spectrometry.

Authors:  Fatemeh Mahmoodani; Conrad O Perera; Grant Abernethy; Bruno Fedrizzi; David Greenwood; Hong Chen
Journal:  J Am Soc Mass Spectrom       Date:  2018-03-19       Impact factor: 3.109

8.  A Targeted Quantitative Proteomic Approach Assesses the Reprogramming of Small GTPases during Melanoma Metastasis.

Authors:  Ming Huang; Tianyu F Qi; Lin Li; Gao Zhang; Yinsheng Wang
Journal:  Cancer Res       Date:  2018-08-02       Impact factor: 12.701

9.  Peroxidatic cysteine residue of peroxiredoxin 2 separated from human red blood cells treated by tert-butyl hydroperoxide is hyperoxidized into sulfinic and sulfonic acids.

Authors:  Yo-Ichi Ishida; Mariko Aki; Sohta Fujiwara; Masami Nagahama; Yuki Ogasawara
Journal:  Hum Cell       Date:  2017-04-22       Impact factor: 4.174

Review 10.  Clinical applications of quantitative proteomics using targeted and untargeted data-independent acquisition techniques.

Authors:  Jesse G Meyer; Birgit Schilling
Journal:  Expert Rev Proteomics       Date:  2017-05       Impact factor: 3.940
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