Journal Article

Multi-site assessment of the precision and reproducibility of multiple reaction monitoring–based measurements of proteins in plasma

Carr, Steven A, Hiltke, Tara, Mani, D R, Smith, Derek, Variyath, Asokan M, Kinsinger, Christopher R, Tegeler, Tony J, Blackman, Ronald K, Skates, Steven J, Whiteaker, Jeffrey R, Ransohoff, David, Cusack, Michael P, Tabb, David L, Pulsipher, Trenton C, Neubert, Thomas A, Bunk, David M, Zhao, Lei, Wahlander, Åsa, Anderson, N Leigh, Borchers, Christoph H, Zimmerman, Lisa J, Held, Jason M, Vega-Montoto, Lorenzo J, Rudnick, Paul A, Gibson, Bradford W, Tempst, Paul, Jackson, Angela, Schilling, Birgit, Rodriguez, Henry, Waldemarson, Sofia, Mesri, Mehdi, Niles, Richard K, Cardasis, Helene L, Ham, Amy-Joan L, Liebler, Daniel C, Dodder, Nathan G, Keshishian, Hasmik, Wang, Mu, Abbatiello, Susan E, Li, Jing, Fisher, Susan J, Spiegelman, Clifford H, Addona, Terri A, Hall, Steven C, Johansen, Eric B, Regnier, Fred E, Allen, Simon, Paulovich, Amanda G, Buck, Charles

2009

Overview

Although multiple reaction monitoring (MRM) mass spectrometry holds considerable promise for quantifying candidate protein biomarkers in blood, transferability of MRM assays between laboratories has never been shown. Addona et al . assess the reproducibility, dynamic range and limits of detection and quantification of MRM across multiple sites. Verification of candidate biomarkers relies upon specific, quantitative assays optimized for selective detection of target proteins, and is increasingly viewed as a critical step in the discovery pipeline that bridges unbiased biomarker discovery to preclinical validation. Although individual laboratories have demonstrated that multiple reaction monitoring (MRM) coupled with isotope dilution mass spectrometry can quantify candidate protein biomarkers in plasma, reproducibility and transferability of these assays between laboratories have not been demonstrated. We describe a multilaboratory study to assess reproducibility, recovery, linear dynamic range and limits of detection and quantification of multiplexed, MRM-based assays, conducted by NCI-CPTAC. Using common materials and standardized protocols, we demonstrate that these assays can be highly reproducible within and across laboratories and instrument platforms, and are sensitive to low μg/ml protein concentrations in unfractionated plasma. We provide data and benchmarks against which individual laboratories can compare their performance and evaluate new technologies for biomarker verification in plasma.

• Publisher: Nature Publishing Group US,Nature Publishing Group
• Subject: Agriculture / analysis / Benchmarks / Bioinformatics / Biological and medical sciences / Biological markers / Biomarkers / Biomarkers - blood / Biomedical and Life Sciences / Biomedical Engineering/Biotechnology / Biomedicine / Biotechnology / Blood Chemical Analysis - methods / Blood proteins / Blood Proteins - analysis / Diseases / Fundamental and applied biological sciences. Psychology / Health aspects / Humans / Infants (Newborn) / Innovations / Life Sciences / Linear Models / Mass spectrometry / Mass Spectrometry - methods / Mass Spectrometry - standards / Plasma / Proteins / Proteome - analysis / Reproducibility of Results / Sensitivity and Specificity / Technology Assessment, Biomedical