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The primary goals of this study were to provide each participating laboratory an
opportunity to evaluate its capabilities and approaches with regard to:
• Separations technologies employed in proteomics analyses
• Methodologies used to identify proteins
• Bioinformatics tools used to consolidate protein identifications
The ultimate goal of this study was to fully evaluate this protein mixture as the first step in the development of a recognized standard within the proteomics
community.
Laboratories requesting samples received a mixture containing up to 50
proteins representative of a single species. The proteins will be present in
amounts sufficient to utilize to a wide variety of proteomics platforms and strategies.
ProteoRed participating laboratories:
Summary of the results obtained:
CONCLUSIONS
- The percentage of ProteoRed labs that took part in the ABRF sPRG 2006 has been ~ 70%.
- Experimental approaches and technological platforms used by ProteoRed members were very similar to those described in the ABRF study.
- ProteoRed global results reflect almost exactly the wide range of results seen in the ABRF sPRG 2006 contest.
- ProteoRed labs reported less missidentifications, including a higher percentage of laboratories reporting 100% of correct identifications.
- The ABRF standard was apparently not appropriate for 2D fractionation followed by PMF analysis.
- Some instruments work better than others, although the experience and competence of the analysts can overcome the lack of the latest instruments.
- A summary of the results obtained by ProteoRed members as well as a detailed description of Materials and methods was made accesible through the ProteoRed web page.
FUTURE ACTIONS
- To obtain and distribute new sPRG2006 ABRF samples. These will be reanalyzed using new experimental and/or instrumental approaches and the data will be compared with those obtained in the 1st study.
- Samples (n=30) were kindly obtained from Sigma-Aldrich and distributed in June-July 2006. Results were sent before October 2006.
- The use of more than a single search engine was stressed. GeneBio Phenyx evaluation was prioritary.
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