Gramene Project

The Gramene database (http://www.gramene.org) is an integrated resource for comparative genome and functional analysis in plants. The database provides agricultural researchers and plant breeders with valuable biological information on genomes and plant pathways of several crops and model species, thus enabling powerful comparisons across species. During this workshop, we will demonstrate how to navigate the website, review the available resources at Gramene, and instruct participants on how to upload and analyze their own data. Advanced database users will also benefit from learning about programmatic access to query and analyze plant genome data via the Ensembl Genomes RESTful interface. The newly curated pathways and orthologous pathway projections in the Plant Reactome, as well the capabilities of the independent Expression Atlas resource for gene expression will also be presented. This workshop is open to the community of plant researchers and breeders; beginners, as well as frequent users of the Gramene database alike are welcome and encouraged to join. Attendees may bring their own data to work with during the workshop.
Date: Tuesday, January 13, 2015
Time: 1:30 PM-3:40 PM
Room: California
Doreen Ware and Marcela Karey Tello-Ruiz
1:50 PM
Programmatic Interfaces to Plant Genomic Data
Paul J. Kersey, EMBL - The European Bioinformatics Institute

2:10 PM
Plant Reactome: A Resource for Plant Metabolic and Regulatory Pathways
Justin Preece, Department of Botany & Plant Pathology, Oregon State University

2:30 PM
2:50 PM
Hands-on Session: Upload, Display and Analyze Your Data on the Gramene/Ensembl Genome Browser
Sushma Naithani, Department of Botany & Plant Pathology, Oregon State University

See more of: Workshops