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PROTICdb: a web-based application to store, track, query, and compare plant proteome data.

Hélène Ferry-Dumazet·Gwenn Houel·Pierre Montalent·Luc Moreau·Olivier Langella·Luc Negroni·Delphine Vincent·Céline Lalanne·Antoine de Daruvar·Christophe Plomion·Michel Zivy·Johann Joets
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Abstract

PROTICdb is a web-based application, mainly designed to store and analyze plant proteome data obtained by two-dimensional polyacrylamide gel electrophoresis (2-D PAGE) and mass spectrometry (MS). The purposes of PROTICdb are (i) to store, track, and query information related to proteomic experiments, i.e., from tissue sampling to protein identification and quantitative measurements, and (ii) to integrate information from the user's own expertise and other sources into a knowledge base, used to support data interpretation (e.g., for the determination of allelic variants or products of post-translational modifications). Data insertion into the relational database of PROTICdb is achieved either by uploading outputs of image analysis and MS identification software, or by filling web forms. 2-D PAGE annotated maps can be displayed, queried, and compared through a graphical interface. Links to external databases are also available. Quantitative data can be easily exported in a tabulated format for statistical analyses. PROTICdb is based on the Oracle or the PostgreSQL Database Management System and is freely available upon request at the following URL: http://moulon.inra.fr/ bioinfo/PROTICdb.

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Computer GraphicsDatabase Management SystemsDatabases, ProteinElectrophoresis, Gel, Two-DimensionalInformation Storage and RetrievalInternetMass SpectrometryPlant ProteinsProteomeSoftwareSpecimen HandlingUser-Computer InterfaceComparative StudyJournal ArticleResearch Support, Non-U.S. Gov't

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Hélène Ferry-Dumazet, Gwenn Houel, Pierre Montalent, Luc Moreau, Olivier Langella, Luc Negroni, Delphine Vincent, Céline Lalanne, Antoine de Daruvar, Christophe Plomion, Michel Zivy, Johann Joets. 2005. PROTICdb: a web-based application to store, track, query, and compare plant proteome data.. https://doi.org/10.1002/pmic.200401111

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