A comparison of labeling and label-free mass spectrometry-based proteomics approaches

Vibhuti J. Patel; Konstantinos Thalassinos; Susan E. Slade; Joanne B. Connolly; Andrew Crombie; J. Colin Murrell; James  Scrivens

doi:10.1021/pr900080y

A comparison of labeling and label-free mass spectrometry-based proteomics approaches

Vibhuti J. Patel
, Konstantinos Thalassinos
, Susan E. Slade
, Joanne B. Connolly
, Andrew Crombie
, J. Colin Murrell
, James Scrivens

Research output: Contribution to journal › Article › peer-review

149 Citations (Scopus)

Abstract

The proteome of the recently discovered bacterium Methylocella silvestris has been characterized using three profiling and comparative proteomics approaches. The organism has been grown on two different substrates enabling variations in protein expression to be identified. The results obtained using the experimental approaches have been compared with respect to number of proteins identified, confidence in identification, sequence coverage and agreement of regulated proteins. The sample preparation, instrumental time and sample loading requirements of the differing experiments are compared and discussed. A preliminary screen of the protein regulation results for biological significance has also been performed.

Original language	English
Pages (from-to)	3752-3759
Number of pages	8
Journal	Journal of Proteome Research
Volume	8
Issue number	7
DOIs	https://doi.org/10.1021/pr900080y
Publication status	Published - 6 Jul 2009

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10.1021/pr900080y

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AU - Crombie, Andrew

AU - Murrell, J. Colin

AU - Scrivens, James

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AB - The proteome of the recently discovered bacterium Methylocella silvestris has been characterized using three profiling and comparative proteomics approaches. The organism has been grown on two different substrates enabling variations in protein expression to be identified. The results obtained using the experimental approaches have been compared with respect to number of proteins identified, confidence in identification, sequence coverage and agreement of regulated proteins. The sample preparation, instrumental time and sample loading requirements of the differing experiments are compared and discussed. A preliminary screen of the protein regulation results for biological significance has also been performed.

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A comparison of labeling and label-free mass spectrometry-based proteomics approaches

Abstract

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