The Generation Challenge Programme Platform: Semantic Standards and Workbench for Crop Science-Reference-Cited by-同舟云学术

The Generation Challenge Programme Platform: Semantic Standards and Workbench for Crop Science

Published:2008-04-30 Issue: Volume:2008 Page:1-6
ISSN:1687-5370
Container-title:International Journal of Plant Genomics
language:en
Short-container-title:International Journal of Plant Genomics

Author:

Bruskiewich Richard¹,Senger Martin¹,Davenport Guy²,Ruiz Manuel³,Rouard Mathieu⁴,Hazekamp Tom⁴,Takeya Masaru⁵,Doi Koji⁵,Satoh Kouji⁵,Costa Marcos⁶,Simon Reinhard⁷,Balaji Jayashree⁸,Akintunde Akinnola⁹,Mauleon Ramil¹,Wanchana Samart¹¹⁰,Shah Trushar²,Anacleto Mylah¹,Portugal Arllet¹,Ulat Victor Jun¹,Thongjuea Supat¹⁰,Braak Kyle²,Ritter Sebastian²,Dereeper Alexis³,Skofic Milko⁴,Rojas Edwin⁷,Martins Natalia⁶,Pappas Georgios⁶,Alamban Ryan¹,Almodiel Roque¹,Barboza Lord Hendrix¹,Detras Jeffrey¹,Manansala Kevin¹,Mendoza Michael Jonathan¹,Morales Jeffrey¹,Peralta Barry¹,Valerio Rowena¹,Zhang Yi¹,Gregorio Sergio¹¹¹,Hermocilla Joseph¹¹¹,Echavez Michael¹¹²,Yap Jan Michael¹¹²,Farmer Andrew¹³,Schiltz Gary¹³,Lee Jennifer¹⁴,Casstevens Terry¹⁵,Jaiswal Pankaj¹⁵,Meintjes Ayton¹⁶,Wilkinson Mark¹⁷,Good Benjamin¹⁸¹⁹,Wagner James¹⁸¹⁹,Morris Jane¹⁶,Marshall David¹⁴,Collins Anthony⁷,Kikuchi Shoshi⁵,Metz Thomas¹,McLaren Graham¹,van Hintum Theo²⁰

Affiliation:

1. Crop Research Informatics Laboratory, International Rice Research Institute (IRRI), DAPO Box 7777, Metro Manila, Philippines

2. Crop Research Informatics Laboratory, International Maize and Wheat Improvement Center (CIMMYT), Apdo. Postal 6-641, Mexico, DF 06600, Mexico

3. Centre International de Recherche Agronomique pour le Développement (CIRAD), Avenue Agropolis, Montpellier, Cedex 5 34398, France

4. Bioversity International, Via dei Tre Denari 472/a, 00057 Maccarese (Fiumicino), Rome, Italy

5. National Institute for Agrobiological Sciences (NIAS), Kannondai 2-1-2, Tsukuba, Ibaraki 305-8602, Japan

6. Empresa Brasileira de Pesquisa Agropecuaria (EMBRAPA), Parque Estação Biologia Final W5 Norte, Brasilia, DF 70770-900, Brazil

7. Centro Internacional de la Papa (CIP), Avenida La Molina 1895, La Molina, Apartado Postal 1558, Lima 12, Peru

8. International Crops Research Institute for the Semi-Arid Tropics, Patancheru, Andhra Pradesh 502324, India

9. International Center for Agricultural Research in the Dry Areas, P.O. Box 5466, Aleppo, Syria

10. National Center for Genetic Engineering and Biotechnology, 113 Thailand Science Park, Phahonyothin Road, Klong 1, Klong Luang, Pathumthani 12120, Thailand

11. Institute of Computer Science, College of Arts and Sciences, University of the Philippines, Los Baños, Laguna 4031, Philippines

12. Department of Computer Science, University of the Philippines, Room 215, Melchor Hall, Diliman, Quezon City 1101, Philippines

13. National Center for Genome Resources, 2935 Rodeo Park Drive East, Santa Fe, NM 87505, USA

14. Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, Scotland, UK

15. Department of Plant Breeding, Cornell University, Ithaca, NY 14853, USA

16. African Centre for Gene Technologies, P.O. Box 75011, Lynnwood Ridge 0040, South Africa

17. Department of Medical Genetics, Faculty of Medicine, The University of British Columbia, Vancouver, BC, Canada V6T 1Z3

18. School of Computing Science, Simon Fraser Universtiy, 8888 University Drive, Burnaby, BC, Canada V5A 1S6

19. Bioinformatics Graduate Program, Genome Sciences Centre, BC Cancer Agency, 100-570 West 7th Avenue, Vancouver, BC, Canada V5Z 4S6

20. Centre for Genetic Resources, The Netherlands (CGN), P.O. Box 16, Wageningen 6700 AA, The Netherlands

Abstract

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.

Publisher

Hindawi Limited

Subject

Plant Science,Genetics

Link

http://downloads.hindawi.com/archive/2008/369601.pdf

Reference11 articles.

1. Generation Challenge Programme (GCP): Standards for Crop Data

2. Linking genotype to phenotype: the International Rice Information System (IRIS)

3. The International Rice Information System. A Platform for Meta-Analysis of Rice Crop Data

4. ISYS: a decentralized, component-based approach to the integration of heterogeneous bioinformatics resources

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