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BreedWheat GWAS data in GnpIS information system
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Book of abstracts, ISBN: 978-2-9563873-0-5, EAN: 9782956387305 Poster PI-05, p. 53
Book of abstracts, ISBN: 978-2-9563873-0-5, EAN: 9782956387305Poster PI-05, p. 53.
BreedWheat project (https://breedwheat.fr/) aims to support the competitiveness of the French wheat breeding sector, answering to societal challenges for a sustainable and quality production. Moreover, the BreedWheat project characterize yet poorly exploited genetic resources to expand the diversity of the elite germplasm. Finally, new breeding methods are developed and evaluated for their socioeconomic impact.The URGI (Research Unit in Genomics Info) is an INRA research unit in genomics and bioinformatics dedicated to plants and their parasites. It develops and maintains an information system in genomics and genetics: GnpIS (Steinbach et al., Database 2013, doi: 10.1093/database/bat058).BreedWheat data available in GnpIS are genetic resources (collection of 5,232 accessions), polymorphisms (724,020 SNPs from 10 sources), genotyping (Affymetrix Axiom TaBW420K array), phenotyping (48,000 micro-plots in 21 locations) and Genome Wide Association Study (775,621 association results calculated from phenotyping and genotyping values): https://wheat-urgi.versailles.inra.fr/Projects/BreedWheat.GnpIS interface allows to display association values (with links to metadata, phenotyping and genotyping related values), these data can be filtered according to several criteria (eg p-val) and visualized graphically (QQplot, boxlplot based on genotyping alleles, Manhattan plot mapped to IWGSC RefSeq v1.0).
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