The Phenotype and Genotype Experiment Object Model (PaGE-OM): A Robust Data Structure for Information Related to DNA Variation

Brookes, Anthony J. and Lehvaslaiho, Heikki and Muilu, Juha and Shigemoto, Yasumasa and Oroguchi, Takashige and Tomiki, Takeshi and Mukaiyama, Atsuhiro and Konagaya, Akihiko and Kojima, Toshio and Inoue, Ituro and Kuroda, Masako and Mizushima, Hiroshi and Thorisson, Gudmundur A. and Dash, Debasis and Rajeevan, Haseena and Darlison,, Matthew W and Woon, Mark and Fredman, David and Smith, Albert V. and Senger, Martin and Naito, Kimitoshi and Sugawara, Hideaki (2006) The Phenotype and Genotype Experiment Object Model (PaGE-OM): A Robust Data Structure for Information Related to DNA Variation. INFORMATICS, 30 (6). pp. 968-977.

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Abstract

Torrents of genotype-phenotype data are being generated, all of which must be captured, processed, integrated, and exploited. To do this optimally requires the use of standard and interoperable "object models," providing a description of how to partition the total spectrum of information being dealt with into elemental "objects" (such as "alleles," "genotypes," "phenotype values," "methods") with precisely stated logical interrelationships (such as "A objects are made up from one or more B objects"). We herein propose the Phenotype and Genotype Experiment Object Model (PaGE-OM; www.pageom.org), which has been tested and implemented in conjunction with several major databases, and approved as a standard by the Object Management Group (OMG). PaGE-OM is open-source, ready for use by the wider community, and can be further developed as needs arise. It will help to improve information management, assist data integration, and simplify the task of informatics resource design and construction for genotype and phenotype data projects.

Item Type: Article
Subjects: BI Bioinformatics > BI1 Bioinformatics (General)
Divisions: Faculty of Genomics and Molecular Medicine > School of Genomics and Molecular Medicine
Depositing User: Raghu MV
Date Deposited: 17 Jan 2012 11:23
Last Modified: 17 Jan 2012 11:23
URI: http://openaccess.igib.res.in/id/eprint/125

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