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Molecular & Cellular Proteomics 6:1291-1298, 2007.
© 2007 by The American Society for Biochemistry and Molecular Biology, Inc.

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Report

The Association of Biomolecular Resource Facilities Proteomics Research Group 2006 Study

Relative Protein Quantitation^*

From the ^a Max Planck Institute of Psychiatry, D-80804 Munich, Germany, ^c Howard Hughes Medical Institute Mass Spectrometry Laboratory, Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, ^d Laboratory of Neurotoxicology, National Institute of Mental Health, Bethesda, Maryland 20892, ^e Microchemistry and Proteomics Analysis Facility, Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts 02138, ^f Department of Biochemistry and Cambridge Centre for Proteomics, University of Cambridge, Cambridge CB2 1QW, United Kingdom, ^g Genome Center, University of California, Davis, California 95616, ^h Department of Biochemistry, University of Texas Health Science Center, San Antonio, Texas 78229, ⁱ UCSF Biomolecular Resource Center Mass Spectrometry Facility and Department of Cell and Tissue Biology, University of California, San Francisco, California 94143, and ^j Molecular Profiling Proteomics, Merck Research Laboratories, Merck & Company, Rahway, New Jersey 08854

The determination of differences in relative protein abundance is a critical aspect of proteomics research that is increasingly used to answer diverse biological questions. The Association of Biomolecular Resource Facilities Proteomics Research Group 2006 study was a quantitative proteomics project in which the aim was to determine the identity and the relative amounts of eight proteins in two mixtures. There are numerous methodologies available to study the relative abundance of proteins between samples, but to date, there are few examples of studies that have compared these different approaches. For the 2006 Proteomics Research Group study, there were 52 participants who used a wide variety of gel electrophoresis-, HPLC-, and mass spectrometry-based methods for relative quantitation. The quantitative data arising from this study were evaluated along with several other experimental details relevant to the methodologies used.

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