期刊
JOURNAL OF PROTEOME RESEARCH
卷 10, 期 11, 页码 5260-5263出版社
AMER CHEMICAL SOC
DOI: 10.1021/pr200664h
关键词
proteomics; bioinformatics; mass spectrometry; standards; selection reaction monitoring
资金
- Ghent University (Multidisciplinary Research Partnership Bioinformatics: from nucleotides to networks)
- European Union [262067, 260558]
- National Institutes of Health - National Human Genome Research Institute [HG005805]
- National Institute of General Medical Sciences [GM087221]
- Center for Systems Biology [GMO76547]
- Duchy of Luxembourg (Systems Biology initiative)
We here present jTraML, a Java API for the Proteomics Standards Initiative TraML data standard. The library provides fully functional classes for all elements specified in the TraML XSD document, as well as convenient methods to construct controlled vocabulary-based instances required to define SRM transitions. The use of jTraML is demonstrated via a two-way conversion tool between TraML documents and vendor specific files, facilitating the adoption process of this new community standard. The library is released as open source under the permissive Apache2 license and can be downloaded from http://jtraml.googlecode.com. TraML files can also be converted online at http://iomics.ugent.be/jtraml.
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