Literature DB >> 17901868

Analysis and validation of proteomic data generated by tandem mass spectrometry.

Alexey I Nesvizhskii1, Olga Vitek, Ruedi Aebersold.   

Abstract

The analysis of the large amount of data generated in mass spectrometry-based proteomics experiments represents a significant challenge and is currently a bottleneck in many proteomics projects. In this review we discuss critical issues related to data processing and analysis in proteomics and describe available methods and tools. We place special emphasis on the elaboration of results that are supported by sound statistical arguments.

Mesh：

Year:  2007        PMID： 17901868     DOI： 10.1038/nmeth1088

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


  199 in total

1.  Separation and identification of structural isomers by quadrupole collision-induced dissociation-hydrogen/deuterium exchange-infrared multiphoton dissociation (QCID-HDX-IRMPD).

Authors:  Ashley C Gucinski; Arpád Somogyi; Julia Chamot-Rooke; Vicki H Wysocki
Journal:  J Am Soc Mass Spectrom       Date:  2010-04-02       Impact factor: 3.109

2.  Computational analysis of unassigned high-quality MS/MS spectra in proteomic data sets.

Authors:  Kang Ning; Damian Fermin; Alexey I Nesvizhskii
Journal:  Proteomics       Date:  2010-07       Impact factor: 3.984

3.  Database independent proteomics analysis of the ostrich and human proteome.

Authors:  A F Maarten Altelaar; Danny Navarro; Jos Boekhorst; Bas van Breukelen; Berend Snel; Shabaz Mohammed; Albert J R Heck
Journal:  Proc Natl Acad Sci U S A       Date:  2011-12-22       Impact factor: 11.205

4.  Generic comparison of protein inference engines.

Authors:  Manfred Claassen; Lukas Reiter; Michael O Hengartner; Joachim M Buhmann; Ruedi Aebersold
Journal:  Mol Cell Proteomics       Date:  2011-11-04       Impact factor: 5.911

5.  Analysis of protein mixtures from whole-cell extracts by single-run nanoLC-MS/MS using ultralong gradients.

Authors:  Thomas Köcher; Peter Pichler; Remco Swart; Karl Mechtler
Journal:  Nat Protoc       Date:  2012-04-12       Impact factor: 13.491

6.  A comparative study of in-gel digestions using microwave and pressure-accelerated technologies.

Authors:  Rudy Alvarado; Diana Tran; Bonnie Ching; Brett S Phinney
Journal:  J Biomol Tech       Date:  2010-09

Review 7.  Mass spectrometry based glycoproteomics--from a proteomics perspective.

Authors:  Sheng Pan; Ru Chen; Ruedi Aebersold; Teresa A Brentnall
Journal:  Mol Cell Proteomics       Date:  2010-08-24       Impact factor: 5.911

Review 8.  The grand challenge to decipher the cancer proteome.

Authors:  Samir Hanash; Ayumu Taguchi
Journal:  Nat Rev Cancer       Date:  2010-09       Impact factor: 60.716

Review 9.  The application of mass-spectrometry-based protein biomarker discovery to theragnostics.

Authors:  Jonathan M Street; James W Dear
Journal:  Br J Clin Pharmacol       Date:  2010-04       Impact factor: 4.335

10.  A proteomics search algorithm specifically designed for high-resolution tandem mass spectra.

Authors:  Craig D Wenger; Joshua J Coon
Journal:  J Proteome Res       Date:  2013-01-31       Impact factor: 4.466
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