Journal
JOURNAL OF PROTEOME RESEARCH
Volume 8, Issue 6, Pages 3212-3217Publisher
AMER CHEMICAL SOC
DOI: 10.1021/pr900169w
Keywords
Qurate; msInspect; LC-MS; MS/MS; quantitation; isotopic labeling
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Funding
- National Cancer Institute [U01 CA111273, U54 CA119367]
- National Heart, Lung and Blood Institute [BAA-NHLBI-WH-09-01]
- Department of Defense [W81XWH-06-1-0100]
- Canary Foundation
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We describe and demonstrate the proteomics computational toolkit provided in the open-source msInspect software distribution. The toolkit includes modules written in Java and in the R statistical programming language to aid the rapid development of proteomics software applications. It contains tools for processing and manipulating standard MS data files, including signal processing of LC-MS data and parsing of MS/MS search results, as well as for modeling proteomics data structures, creating charts, and other common tasks. We present this toolkit's capability to rapidly develop new computational tools by presenting an example application, Qurate, a graphical tool for manually curating isotopically labeled peptide quantitative events.
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