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BMC Bioinformatics DOI:10.1186/1471-2105-13-S16-S9

Statistical characterization of multiple-reaction monitoring mass spectrometry (MRM-MS) assays for quantitative proteomics.

Publication TypeJournal Article
Year of Publication2012
AuthorsMani, DR, Abbatiello, SE, Carr, SA
JournalBMC Bioinformatics
Volume13 Suppl 16
PagesS9
Date Published2012
ISSN1471-2105
KeywordsBiomarkers, Data Interpretation, Statistical, Indicator Dilution Techniques, Isotopes, Limit of Detection, Mass Spectrometry, Peptides, Proteins, Proteomics
Abstract

Multiple reaction monitoring mass spectrometry (MRM-MS) with stable isotope dilution (SID) is increasingly becoming a widely accepted assay for the quantification of proteins and peptides. These assays have shown great promise in relatively high throughput verification of candidate biomarkers. While the use of MRM-MS assays is well established in the small molecule realm, their introduction and use in proteomics is relatively recent. As such, statistical and computational methods for the analysis of MRM-MS data from proteins and peptides are still being developed. Based on our extensive experience with analyzing a wide range of SID-MRM-MS data, we set forth a methodology for analysis that encompasses significant aspects ranging from data quality assessment, assay characterization including calibration curves, limits of detection (LOD) and quantification (LOQ), and measurement of intra- and interlaboratory precision. We draw upon publicly available seminal datasets to illustrate our methods and algorithms.

URLhttp://www.biomedcentral.com/1471-2105/13%20Suppl%2016/S9
DOI10.1186/1471-2105-13-S16-S9
Pubmed

http://www.ncbi.nlm.nih.gov/pubmed/23176545?dopt=Abstract

Alternate JournalBMC Bioinformatics
PubMed ID23176545
PubMed Central IDPMC3489552
Grant ListHHSN268201000033C / / PHS HHS / United States
R01 CA126219 / CA / NCI NIH HHS / United States
U24CA126476 / CA / NCI NIH HHS / United States