TOKYO - Dr. Christie Hunter of SCIEX, recipient of the HUPO '13 Science and TechnologyAward, presented The Evolution of Targeted Proteomics, from Art Form to Assay - a 10-year retrospective on the evolution of targeted proteomics.
Major advances in mass spectrometry, she explained, have enabled effective synergies between non-targeted analysis approaches like MS → MS/MS, and targeted methods, of which MRM → MS/MS has become the de facto standard.
"We have great tools today for proteomics across the discovery-to-validation research pipeline, butwe need to find the right balance between hypothesis-generating work, and hypothesis-testing work- where MRM is key," she said.
Dr. Hunter traced the evolution of MRM in her work since 2002, when the first QTRAP® System waslaunched. A key collaboration that highlighted the high value of MRM included Dr. Leigh Anderson,in which the team evaluated the utility of MRMs for targeted quantitation of plasma proteins, culminatingin a highly-cited MCP paper (http://www.mcponline.org/content/5/4/573.full.pdf) in 2006.
"Tremendous value is created when technology developers work in partnership with academicresearchers," she said. "Advances in technology happen when broad cross-functional teams workclosely together to apply those technologies to a wide range of challenges."
She highlighted as an another example the development of SWATH™ Acquisition on SCIEX TripleTOF® systems, a collaboration between SCIEX and Dr. Reudi Aebersold. This data-independent acquisition approach provides comprehensive MS and MS/MS data, plus high analyte coverage with reproducibility and the quantification specificity of MRM. Data processing is achieved by generating post-acquisition extracted ion chromatograms (XICs) of specific peptide fragment ions.
To highlight the data quality attainable using the SWATH™ Acquisition technique, Dr. Hunter presentedan example for E. coli lysate. "In a single run 60 min nanoLC experiment, we quantified over 19,000 transitions, 4,500 peptides and about 1,000 proteins, with reproducibility similar to that achieved by the gold standard MRM strategy," she noted.