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2015

International,  COM (talks) 13 Jan 2015   Wheat3BMine a data warehouse dedicated to wheat 3B chromosome data

L. Couderc, F. Choulet, M. Spannagl, C. Pommier, J. Ll. Gelpi, P. Kersey, H. Quesneville, D. Steinbach & M. Alaux

Integration and analysis of complex biological data is a key challenge of modern bioinformatics. For this purpose, we developed Wheat3BMine at URGI, (INRA research unit in  genomics and bioinformatics dedicated to plants and crop parasites) in the frame of the transPLANT and 3BSEQ projects.Wheat3BMine is a data warehouse dedicated to the Wheat 3B chromosome:http://urgi.versailles.inra.fr/Wheat3BMine/ It is developed using InterMine technology, providing a fast, flexible and user friendly access to integrated data by multiple ways: a browser, a query builder, a region search tool and so on. Moreover data can be filtered and exported  in many formats (GFF3, BED or XML for example). Wheat3BMine users can make lists of their favorite features and save their own queries, an online documentation and pre-computed queries help them to extract  relevant information. Our data warehouse contains heterogeneous data and is gene-centered. Wheat3BMine provides access to genomic annotation data (genes, mRNA, polypeptides), polymorphisms data (markers, transposable elements), genetic mapping data (QTL, metaQTL) or phenotyping data (accessions, evaluation data). In fact our typical gene card centralizes relevant information like function, ontologies or features which overlap this gene. 

Update: 23 Jul 2015
Creation date: 22 Jul 2015