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Clin Chem DOI:10.1373/clinchem.2015.250563

Recommendations for the Generation, Quantification, Storage, and Handling of Peptides Used for Mass Spectrometry-Based Assays.

Publication TypeJournal Article
Year of Publication2016
AuthorsHoofnagle, AN, Whiteaker, JR, Carr, SA, Kuhn, E, Liu, T, Massoni, SA, Thomas, SN, R Townsend, R, Zimmerman, LJ, Boja, E, Chen, J, Crimmins, DL, Davies, SR, Gao, Y, Hiltke, TR, Ketchum, KA, Kinsinger, CR, Mesri, M, Meyer, MR, Qian, W-J, Schoenherr, RM, Scott, MG, Shi, T, Whiteley, GR, Wrobel, JA, Wu, C, Ackermann, BL, Aebersold, R, Barnidge, DR, Bunk, DM, Clarke, N, Fishman, JB, Grant, RP, Kusebauch, U, Kushnir, MM, Lowenthal, MS, Moritz, RL, Neubert, H, Patterson, SD, Rockwood, AL, Rogers, J, Singh, RJ, Van Eyk, JE, Wong, SH, Zhang, S, Chan, DW, Chen, X, Ellis, MJ, Liebler, DC, Rodland, KD, Rodriguez, H, Smith, RD, Zhang, Z, Zhang, H, Paulovich, AG
JournalClin Chem
Date Published2016 Jan
KeywordsClinical Laboratory Techniques, Guidelines as Topic, Humans, Mass Spectrometry, Peptides, Proteomics, Research Personnel, Specimen Handling

BACKGROUND: For many years, basic and clinical researchers have taken advantage of the analytical sensitivity and specificity afforded by mass spectrometry in the measurement of proteins. Clinical laboratories are now beginning to deploy these work flows as well. For assays that use proteolysis to generate peptides for protein quantification and characterization, synthetic stable isotope-labeled internal standard peptides are of central importance. No general recommendations are currently available surrounding the use of peptides in protein mass spectrometric assays.

CONTENT: The Clinical Proteomic Tumor Analysis Consortium of the National Cancer Institute has collaborated with clinical laboratorians, peptide manufacturers, metrologists, representatives of the pharmaceutical industry, and other professionals to develop a consensus set of recommendations for peptide procurement, characterization, storage, and handling, as well as approaches to the interpretation of the data generated by mass spectrometric protein assays. Additionally, the importance of carefully characterized reference materials-in particular, peptide standards for the improved concordance of amino acid analysis methods across the industry-is highlighted. The alignment of practices around the use of peptides and the transparency of sample preparation protocols should allow for the harmonization of peptide and protein quantification in research and clinical care.


Alternate JournalClin. Chem.
PubMed ID26719571
PubMed Central IDPMC4830481
Grant ListU24 CA160034 / CA / NCI NIH HHS / United States
P50GM076547 / GM / NIGMS NIH HHS / United States
U01DK085689 / DK / NIDDK NIH HHS / United States
U24CA159988 / CA / NCI NIH HHS / United States
R01 GM087221 / GM / NIGMS NIH HHS / United States
U24CA160036 / CA / NCI NIH HHS / United States
P30 CA091842 / CA / NCI NIH HHS / United States
U24CA115102 / CA / NCI NIH HHS / United States
U24CA160034 / CA / NCI NIH HHS / United States
U24CA160035 / CA / NCI NIH HHS / United States
R01GM087221 / GM / NIGMS NIH HHS / United States
U24CA160019 / CA / NCI NIH HHS / United States