Literature DB >> 14960397

Analysis, statistical validation and dissemination of large-scale proteomics datasets generated by tandem MS.

Alexey I Nesvizhskii1, Ruedi Aebersold.   

Abstract

Tandem mass spectrometry has been used increasingly for high-throughput analysis of complex protein samples. A major challenge lies in the consistent, objective and transparent analysis of the large amounts of data generated by such experiments and in their dissemination and publication. Here, we review currently available computational tools and discuss the need for statistical criteria in the analysis of large proteomics datasets.

Mesh：

Year:  2004        PMID： 14960397     DOI： 10.1016/S1359-6446(03)02978-7

Source DB:  PubMed          Journal:  Drug Discov Today        ISSN： 1359-6446            Impact factor:   7.851


  37 in total

1.  Staged-probability strategy of processing shotgun proteomic data to discover more functionally important proteins.

Authors:  Hong Xu; Guijun Ma; Qingqiao Tan; Qiang Zhou; Wen Su; Rongxiu Li
Journal:  Protein Cell       Date:  2012-01-09       Impact factor: 14.870

2.  The protein expression landscape of the Arabidopsis root.

Authors:  Jalean J Petricka; Monica A Schauer; Molly Megraw; Natalie W Breakfield; J Will Thompson; Stoyan Georgiev; Erik J Soderblom; Uwe Ohler; Martin Arthur Moseley; Ueli Grossniklaus; Philip N Benfey
Journal:  Proc Natl Acad Sci U S A       Date:  2012-03-23       Impact factor: 11.205

Review 3.  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

4.  Protein and gene model inference based on statistical modeling in k-partite graphs.

Authors:  Sarah Gerster; Ermir Qeli; Christian H Ahrens; Peter Bühlmann
Journal:  Proc Natl Acad Sci U S A       Date:  2010-06-18       Impact factor: 11.205

Review 5.  Advances in protein complex analysis using mass spectrometry.

Authors:  Anne-Claude Gingras; Ruedi Aebersold; Brian Raught
Journal:  J Physiol       Date:  2004-12-20       Impact factor: 5.182

6.  Influence of Escherichia coli DnaK and DnaJ molecular chaperones on tryptophanase (TnaA) amount and GreA, GreB stability.

Authors:  A M Grudniak; B Nowicka-Sans; M Maciag; K I Wolska
Journal:  Folia Microbiol (Praha)       Date:  2004       Impact factor: 2.099

7.  De novo peptide identification via tandem mass spectrometry and integer linear optimization.

Authors:  Peter A DiMaggio; Christodoulos A Floudas
Journal:  Anal Chem       Date:  2007-02-15       Impact factor: 6.986

8.  Advances in proteomic workflows for systems biology.

Authors:  Johan Malmström; Hookeun Lee; Ruedi Aebersold
Journal:  Curr Opin Biotechnol       Date:  2007-08-14       Impact factor: 9.740

9.  A Mixed-Integer Optimization Framework for De Novo Peptide Identification.

Authors:  Peter A Dimaggio; Christodoulos A Floudas
Journal:  AIChE J       Date:  2007-01-01       Impact factor: 3.993

10.  A Multivariate Mixture Model to Estimate the Accuracy of Glycosaminoglycan Identifications Made by Tandem Mass Spectrometry (MS/MS) and Database Search.

Authors:  Yulun Chiu; Paul Schliekelman; Ron Orlando; Joshua S Sharp
Journal:  Mol Cell Proteomics       Date:  2016-12-09       Impact factor: 5.911
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