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Anal Chem. 2012 Jul 17;84(14):5845-50. doi: 10.1021/ac300629p. Epub 2012 Jun 27.

QuaMeter: multivendor performance metrics for LC-MS/MS proteomics instrumentation.

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  • 1Department of Biomedical Informatics, Vanderbilt University Medical Center, Nashville, Tennessee 37232-8575, United States.

Abstract

LC-MS/MS-based proteomics studies rely on stable analytical system performance that can be evaluated by objective criteria. The National Institute of Standards and Technology (NIST) introduced the MSQC software to compute diverse metrics from experimental LC-MS/MS data, enabling quality analysis and quality control (QA/QC) of proteomics instrumentation. In practice, however, several attributes of the MSQC software prevent its use for routine instrument monitoring. Here, we present QuaMeter, an open-source tool that improves MSQC in several aspects. QuaMeter can directly read raw data from instruments manufactured by different vendors. The software can work with a wide variety of peptide identification software for improved reliability and flexibility. Finally, QC metrics implemented in QuaMeter are rigorously defined and tested. The source code and binary versions of QuaMeter are available under Apache 2.0 License at http://fenchurch.mc.vanderbilt.edu.

PMID:
22697456
[PubMed - indexed for MEDLINE]
PMCID:
PMC3730131
Free PMC Article
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