Open Source System for Analyzing, Validating, and Storing Protein Identification Data

This paper describes an open-source system for analyzing, storing, and validating proteomics information derived from tandem mass spectrometry. It is based on a combination of data analysis servers, a user interface, and a relational database. The database was designed to store the minimum amount of...

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Bibliographic Details
Published in:Journal of proteome research 2004-11, Vol.3 (6), p.1234-1242
Main Authors: Craig, Robertson, Cortens, John P, Beavis, Ronald C
Format: Article
Language:English
Subjects:
Computational Biology - methods
Computer Systems
Data Interpretation, Statistical
Databases, Protein
Information Storage and Retrieval
Proteomics - methods
User-Computer Interface
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Summary:This paper describes an open-source system for analyzing, storing, and validating proteomics information derived from tandem mass spectrometry. It is based on a combination of data analysis servers, a user interface, and a relational database. The database was designed to store the minimum amount of information necessary to search and retrieve data obtained from the publicly available data analysis servers. Collectively, this system was referred to as the Global Proteome Machine (GPM). The components of the system have been made available as open source development projects. A publicly available system has been established, comprised of a group of data analysis servers and one main database server. Keywords: proteomics database • GPM • X Tandem • protein identification • XIAPE
ISSN:1535-3893
1535-3907
DOI:10.1021/pr049882h