The generation challenge programme platform: Semantic standards and workbench for crop science

The Generation Challenge programme (GCP) is a global crop research consortium directed toward crop improvement through the application of comparative biology and genetic resources characterization to plant breeding. A key consortium research activity is the development of a GCP crop bioinformatics p...

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Authors: Bruskiewich, R., Senger, M., Davenport, G., Ruíz, M., Rouard, M., Hazekamp, T., Takeya, M., Koji Doi, Kouji Satoh, Costa, M., Simon, R., Jayashree, B., Akinnola Nathaniel Akintunde, Mauleon, R., Wanchana, S., Shah, T., Anacleto, M., Portugal, A., Ulat, V.J., Thongjuea, Supat, Braak, K., Ritter, S., Dereeper, A., Skofic, M., Rojas, E., Martins, N., Pappas, G., Alamban, R., Almodiel,, R., Barboza, L.H., Detras, J., Manansala, K., Mendoza, M.J., Morales, J., Peralta, B., Valerio, R., Yi Zhang, Gregorio, S., Hermocilla, J., Echavez, M., Yap, J.M., Farmer, A., Schiltz, G., Lee, J., Casstevens, T., Jaiswal, P., Meintjes, A., Wilkinson, M.D., Good, B., Wagner, J., Morris, J., Marshall, D.S., Collins, A., Kikuchi, S., Metz, T., McLaren, C., van Hintum, T.
Format: article
Status:Published version
Publication Date:2008
Country:México
Institution:Centro Internacional de Mejoramiento de Maíz y Trigo
Repository:Repositorio Institucional de Publicaciones Multimedia del CIMMYT
OAI Identifier:oai:repository.cimmyt.org:10883/22009
Online Access:https://hdl.handle.net/10883/22009
Access Level:Open access
Keyword:AGRICULTURAL SCIENCES AND BIOTECHNOLOGY
CROP IMPROVEMENT
GENETIC RESOURCES
PLANT BREEDING
BIODIVERSITY
COMPUTER APPLICATIONS
DIGITAL TECHNOLOGY
DATA PROCESSING
Description
Summary:The Generation Challenge programme (GCP) is a global crop research consortium directed toward crop improvement through the application of comparative biology and genetic resources characterization to plant breeding. A key consortium research activity is the development of a GCP crop bioinformatics platform to support GCP research. This platform includes the following: (i) shared, public platform-independent domain models, ontology, and data formats to enable interoperability of data and analysis flows within the platform; (ii) web service and registry technologies to identify, share, and integrate information across diverse, globally dispersed data sources, as well as to access high-performance computational (HPC) facilities for computationally intensive, high-throughput analyses of project data; (iii) platform-specific middleware reference implementations of the domain model integrating a suite of public (largely open-access/-source) databases and software tools into a workbench to facilitate biodiversity analysis, comparative analysis of crop genomic data, and plant breeding decision making.

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