The south green bioinformatics platform : [P988]

Rouard Mathieu, Dereeper Alexis, Droc Gaëtan, Sarah Gautier, Dufayard Jean-François, Guignon Valentin, Hamelin Chantal, Homa Félix, De Lamotte Frédéric, Larmande Pierre, Larivière Delphine, Sabot François, Sempere Guilhem, Summo Marilyne, Pitollat Bertrand, Pointet Stéphanie, This Dominique, Bocs Stéphanie, Ruiz Manuel. 2014. The south green bioinformatics platform : [P988]. In : Plant and Animal Genomes Conference XXII Conference, San diego, United States, San Diego, United States, January 11-15, 2014. s.l. : s.n., Résumé Plant and Animal Genome Conference. 22, San Diego, États-Unis, 11 Janvier 2014/15 Janvier 2014.

Résumé : The South Green platform (http://www.southgreen.fr/) is a local network of scientists gathering Bioinformatics skills based on the Agropolis campus that hosts research institutes such as CIRAD, IRD, INRA, SupAgro and Bioversity international. Based on this strong local community in the field of agriculture, food and biodiversity, various bioinformatics applications and resources dedicated to genomics of tropical and Mediterranean plants has been developed and published. The objectives of South Green are to promote these original tools as well as their interoperability. Exchange and collaborative developments are also fostered through regular hands-on sessions on synergistic themes such as Galaxy, genome annotation or next generation genotyping. Finally, we provide access to computing facilities and hands-on training for both users and developers engaged in the network. The South Green web portal contains currently 20 information systems and tools and targets about 30 plants. As a proof of concept for system interoperability, we recently released the Banana Genome Hub powered by major GMOD components (i.e. Chado, Cmap, Gbrowse, Tripal, Galaxy, Pathway tools) and South Green tools (e.g. GnpAnnot, GreenPhylDB, SNiPlay, TropGeneDB, ESTtik, OryGenesDB). This concept of hub can be extended to other crops as currently done for the Coffee genome. (Texte intégral)

Classification Agris : F30 - Génétique et amélioration des plantes
C30 - Documentation et information

Auteurs et affiliations

• Rouard Mathieu, Bioversity International (FRA)
• Dereeper Alexis, IRD (FRA)
• Droc Gaëtan, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-1849-1269
• Sarah Gautier, INRA (FRA)
• Dufayard Jean-François, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0002-7427-6822
• Guignon Valentin, Bioversity International (FRA)
• Hamelin Chantal, CIRAD-BIOS-UMR AGAP (FRA)
• Homa Félix, INRA (FRA)
• De Lamotte Frédéric, INRA (FRA)
• Larmande Pierre, IRD (FRA)
• Larivière Delphine, CIRAD-BIOS-UMR AGAP (FRA)
• Sabot François, IRD (FRA)
• Sempere Guilhem, CIRAD-BIOS-UMR INTERTRYP (FRA) ORCID: 0000-0001-7429-2091
• Summo Marilyne, CIRAD-BIOS-UMR AGAP (FRA)
• Pitollat Bertrand, CIRAD-BIOS-UMR AGAP (FRA)
• Pointet Stéphanie, CIRAD-BIOS-UMR AGAP (FRA)
• This Dominique, Montpellier SupAgro (FRA)
• Bocs Stéphanie, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0001-7850-4426
• Ruiz Manuel, CIRAD-BIOS-UMR AGAP (COL) ORCID: 0000-0001-8153-276X

Source : Cirad - Agritrop (https://agritrop.cirad.fr/573290/)

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