The phenotype and genotype experiment object model (PaGE-OM): a robust data structure for information related to DNA variation.
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.
Brookes
Anthony J
AJ
University of Leicester, Department of Genetics, Leicester, UK. ajb97@leicester.ac.uk
Lehvaslaiho
Heikki
H
Muilu
Juha
J
Shigemoto
Yasumasa
Y
Oroguchi
Takashige
T
Tomiki
Takeshi
T
Mukaiyama
Atsuhiro
A
Konagaya
Akihiko
A
Kojima
Toshio
T
Inoue
Ituro
I
Kuroda
Masako
M
Mizushima
Hiroshi
H
Thorisson
Gudmundur A
GA
Dash
Debasis
D
Rajeevan
Haseena
H
Darlison
Matthew W
MW
Woon
Mark
M
Fredman
David
D
Smith
Albert V
AV
Senger
Martin
M
Naito
Kimitoshi
K
Sugawara
Hideaki
H
D004247:DNA / Q000235:genetics*; D030541:Databases, Genetic; D014644:Genetic Variation; D005838:Genotype; D006801:Humans; D008957:Models, Genetic; D010641:Phenotype
D004247:DNA