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

被引：165

作者：

Hoofnagle, Andrew N. ^{[1
]}

Whiteaker, Jeffrey R. ^{[2
]}

Carr, Steven A. ^{[3
]}

Kuhn, Eric ^{[3
]}

Liu, Tao ^{[4
]}

Massoni, Sam A. ^{[5
]}

Thomas, Stefani N. ^{[6
]}

Townsend, R. Reid ^{[7
]}

Zimmerman, Lisa J. ^{[8
]}

Boja, Emily ^{[9
]}

Chen, Jing

Crimmins, Daniel L. ^{[7
]}

Davies, Sherri R. ^{[7
]}

Gao, Yugian ^{[4
]}

Hiltke, Tara R. ^{[9
]}

Ketchum, Karen A. ^{[10
]}

Kinsinger, Christopher R.

Mesri, Mehdi ^{[9
]}

Meyer, Matthew R. ^{[7
]}

Qian, Wei-Jun ^{[4
]}

Schoenherr, Regine M. ^{[2
]}

Scott, Mitchell G. ^{[7
]}

Shi, Tujin ^{[4
]}

Whiteley, Gordon R. ^{[11
]}

Wrobel, John A. ^{[12
]}

Wu, Chaochao ^{[4
]}

Ackermann, Brad L. ^{[13
]}

Aebersold, Ruedi ^{[14
]}

Barnidge, David R. ^{[15
]}

Bunk, David M. ^{[16
]}

Clarke, Nigel ^{[17
]}

Fishman, Jordan B. ^{[18
]}

Grant, Russ P. ^{[19
]}

Kusebauch, Ulrike

Kushnir, Mark M. ^{[21
,22
]}

Lowenthal, Mark S. ^{[16
]}

Moritz, Robert L. ^{[20
]}

Neubert, Hendrik ^{[23
]}

Patterson, Scott D. ^{[24
]}

Rockwood, Alan L. ^{[21
,22
]}

Rogers, John ^{[25
]}

Singh, Ravinder J.

Van Eyk, Jennifer E. ^{[26
]}

Wong, Steven H. ^{[27
]}

Zhang, Shucha ^{[28
]}

Chan, Daniel W.

Chen, Xian

Ellis, Matthew J. ^{[29
]}

Liebler, Daniel C. ^{[8
]}

Rodland, Karin D. ^{[4
]}

机构：

[1] Univ Washington, Seattle, WA 98115 USA

[2] Fred Hutchinson Canc Res Ctr, Seattle, WA 98109 USA

[3] Broad Inst, Cambridge, MA USA

[4] Pacific NW Natl Lab, Richland, WA 99352 USA

[5] New England Peptide Inc, Gardner, MA USA

[6] Johns Hopkins Univ, Baltimore, MD USA

[7] Washington Univ, St Louis, MO USA

[8] Vanderbilt Univ, Nashville, TN 37235 USA

[9] NCI, Bethesda, MD 20892 USA

[10] ESAC Inc, Rockville, MD USA

[11] Frederick Natl Lab Canc Res, Frederick, MD USA

[12] Univ N Carolina, Sch Med, Chapel Hill, NC USA

[13] Eli Lilly & Co, Indianapolis, IN 46285 USA

[14] Swiss Fed Inst Technol, Inst Mol Syst Biol, Zurich, Switzerland

[15] Mayo Clin, Coll Med, Rochester, MN USA

[16] NIST, Gaithersburg, MD 20899 USA

[17] Quest Diagnost, San Juan Capistrano, CA USA

[18] 21st Century Biochem Inc, Marlborough, MA USA

[19] Lab Corp Amer Holdings Inc, Burlington, NC USA

[20] Inst Syst Biol, Seattle, WA USA

[21] Univ Utah, Salt Lake City, UT USA

[22] ARUP Labs, Salt Lake City, UT USA

[23] Pfizer Inc, Andover, MA USA

[24] Gilead Sci Inc, Foster City, CA USA

[25] Thermo Fisher Sci, Rockford, IL USA

[26] Cedars Sinai Med Ctr, Los Angeles, CA 90048 USA

[27] Wake Forest Sch Med, Winston Salem, NC USA

[28] Enanta Pharmaceut, Watertown, MA USA

[29] Baylor Coll Med, Houston, TX 77030 USA

来源：

CLINICAL CHEMISTRY | 2016年 / 62卷 / 01期

关键词：

AMINO-ACID-ANALYSIS; PERFORMANCE LIQUID-CHROMATOGRAPHY; PROTEIN QUANTIFICATION; ISOTOPE-DILUTION; QUANTITATIVE BIOANALYSIS; PROTEOTYPIC PEPTIDES; INTERNAL STANDARD; LC-MS/MS; PROTEOMICS; PREDICTION;

D O I：

10.1373/clinchem.2015.250563

中图分类号：

R446 [实验室诊断]; R-33 [实验医学、医学实验];

学科分类号：

1001 ;

摘要：

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. (C) 2015 American Association for Clinical Chemistry

引用

页码：48 / 69

页数：22

共 76 条

[1] Large-Scale Interlaboratory Study to Develop, Analytically Validate and Apply Highly Multiplexed, Quantitative Peptide Assays to Measure Cancer-Relevant Proteins in Plasma [J].

Abbatiello, Susan E. ;

Schilling, Birgit ;

Mani, D. R. ;

Zimmerman, Lisa J. ;

Hall, Steven C. ;

Maclean, Brendan ;

Albertolle, Matthew ;

Allen, Simon ;

Burgess, Michael ;

Cusack, Michael P. ;

Gosh, Mousumi ;

Hedrick, Victoria ;

Held, Jason M. ;

Inerowicz, H. Dorota ;

Jackson, Angela ;

Keshishian, Hasmik ;

Kinsinger, Christopher R. ;

Lyssand, John ;

Makowski, Lee ;

Mesri, Mehdi ;

Rodriguez, Henry ;

Rudnick, Paul ;

Sadowski, Pawel ;

Sedransk, Nell ;

Shaddox, Kent ;

Skates, Stephen J. ;

Kuhn, Eric ;

Smith, Derek ;

Whiteaker, Jeffery R. ;

Whitwell, Corbin ;

Zhang, Shucha ;

Borchers, Christoph H. ;

Fisher, Susan J. ;

Gibson, Bradford W. ;

Liebler, Daniel C. ;

MacCoss, Michael J. ;

Neubert, Thomas A. ;

Paulovich, Amanda G. ;

Regnier, Fred E. ;

Tempst, Paul ;

Carr, Steven A. .

MOLECULAR & CELLULAR PROTEOMICS, 2015, 14 (09) :2357-2374

[2] Automated Detection of Inaccurate and Imprecise Transitions in Peptide Quantification by Multiple Reaction Monitoring Mass Spectrometry [J].

Abbatiello, Susan E. ;

Mani, D. R. ;

Keshishian, Hasmik ;

Carr, Steven A. .

CLINICAL CHEMISTRY, 2010, 56 (02) :291-305

[3] Simultaneous Quantification of Apolipoprotein A-I and Apolipoprotein B by Liquid-Chromatography-Multiple-Reaction-Monitoring Mass Spectrometry [J].

Agger, Sean A. ;

Marney, Luke C. ;

Hoofnagle, Andrew N. .

CLINICAL CHEMISTRY, 2010, 56 (12) :1804-1813

[4]

Angeletti RH, 1997, METHOD ENZYMOL, V289, P697

[5]

Armbruster David, 2007, Clin Biochem Rev, V28, P105

[6] Differential recovery of peptides from sample tubes and the reproducibility of quantitative proteomic data [J].

Bark, Steven J. ;

Hook, Vivian .

JOURNAL OF PROTEOME RESEARCH, 2007, 6 (11) :4511-4516

[7]

Bodanszky M., 1993, PRINCIPLES PEPTIDE S, V2nd

[8] Chromatographic behaviour of peptides following dimethylation with H2/D2-formaldehyde: Implications for comparative proteomics [J].

Boutilier, Joseph M. ;

Warden, Hunter ;

Doucette, Alan A. ;

Wentzell, Peter D. .

JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES, 2012, 908 :59-66

[9] Verification of in vitro medical diagnostics (IVD) metrological traceability: Responsibilities and strategies [J].

Braga, Federica ;

Panteghini, Mauro .

CLINICA CHIMICA ACTA, 2014, 432 :55-61

[10] Isotope dilution strategies for absolute quantitative proteomics [J].

Brun, Virginie ;

Masselon, Christophe ;

Garin, Jerome ;

Dupuis, Alain .

JOURNAL OF PROTEOMICS, 2009, 72 (05) :740-749

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