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

BMC Bioinformatics
Authors
Keywords
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.

Year of Publication
2012
Journal
BMC Bioinformatics
Volume
13 Suppl 16
Pages
S9
Date Published
2012
ISSN
1471-2105
URL
DOI
10.1186/1471-2105-13-S16-S9
PubMed ID
23176545
PubMed Central ID
PMC3489552
Links
Grant list
HHSN268201000033C / PHS HHS / United States
R01 CA126219 / CA / NCI NIH HHS / United States
U24CA126476 / CA / NCI NIH HHS / United States