title: PROTICdb: a web-based application to store, track, query, and compare plant proteome data.
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.
authors.affiliation: Centre de Bioinformatique de Bordeaux, Université Victor Segalen Bordeaux 2, France.
authors.forename: Hélène
authors.initials: H
authors.lastname: Ferry-Dumazet
authors.forename: Gwenn
authors.initials: G
authors.lastname: Houel
authors.forename: Pierre
authors.initials: P
authors.lastname: Montalent
authors.forename: Luc
authors.initials: L
authors.lastname: Moreau
authors.forename: Olivier
authors.initials: O
authors.lastname: Langella
authors.forename: Luc
authors.initials: L
authors.lastname: Negroni
authors.forename: Delphine
authors.initials: D
authors.lastname: Vincent
authors.forename: Céline
authors.initials: C
authors.lastname: Lalanne
authors.forename: Antoine
authors.initials: A
authors.lastname: de Daruvar
authors.forename: Christophe
authors.initials: C
authors.lastname: Plomion
authors.forename: Michel
authors.initials: M
authors.lastname: Zivy
authors.forename: Johann
authors.initials: J
authors.lastname: Joets
mesh_terms: D003196:Computer Graphics; D003628:Database Management Systems; D030562:Databases, Protein; D015180:Electrophoresis, Gel, Two-Dimensional; D016247:Information Storage and Retrieval; D020407:Internet; D013058:Mass Spectrometry; D010940:Plant Proteins / Q000737:chemistry*; D020543:Proteome / Q000032:analysis*; D012984:Software; D013048:Specimen Handling; D014584:User-Computer Interface
chemical_list: D010940:Plant Proteins; D020543:Proteome