Nature Precedings, "a platform for sharing new and preliminary findings with colleagues on a global scale," has published a short article by Gramene staff scientist Charles Chen entitled "The Gramene Genetic Diversity Module: a resource for genotype-phenotype association analysis in grass species".
Apply for the travel awards to attend Gene Annotation Workshop to be held at the ASPB’s Plant Biology 2010 meeting.
If selected, the travel award will cover the cost of your registration for the entire Plant Biology 2010 meeting. We expect to award 10-20 participants.
Apply online at: http://plantontology.org/workshop/pb2010.html
Application Deadline: July 15, 2010
Workshop [...]
A while ago, Gramene instantiated a Distributed Annotation System (DAS) for serving some of our rice genome annotations directly from our markers and sequences database. We soon found that the size and design of our database was not optimized for type of real-time queries necessary to serve DAS.
One particularly testy problem was [...]
Gramene would like our users to be aware of the scholarship program with OpenHelix for under-represented groups in science. For more information, please see the press release.
Today Gramene announces an interim release (Build 30a) with the following updates:
Data
Updated variation database for Arabidopsis thaliana with indels from Mott (Wellcome Trust Centre for HumanGenetics) and Kover (University of Bath); and updated Affymetrix data from Nordborg (see this page for information)
Updated variation database for Vitis vinifera to include read coverage data
Updated BioMart
Software migrated to [...]
Several of Gramene’s personnel were present at the 2010 Plant and Animal Genome (PAG) conference in San Diego, CA. We presented posters on metabolic pathway networks for cereal plants, genome visualization tools, and using our genetic diversity data for genotype-phenotype association analysis in grass species as well as flowering time variation across three plant [...]
The Gramene team is happy to announce the 30th release of our website. This release includes the latest version 55 of the Ensembl genome browser displaying a total of thirteen distinct genomes; two new comparative maps; updates to proteins, genes, alleles, and pathways; new large-scale SNP-chip based genotype datasets for rice and Arabidopsis plus [...]
TAIR Workshop II: TAIR, PMN, Gramene and SGN workshop: focus on comparative genomics and new tools
Time: Monday July 20, 7:00-8:30 pm
Speakers: Philippe Lamesch, A.S. Karthikeyan, Lukas Mueller, Pankaj Jaiswal
In this workshop, four plant genome databases, TAIR, PMN, Gramene and SGN will give an overview of new tools available on their websites, including those focusing on [...]
The Gramene Genetic Diversity curator, Genevieve DeClerck, traveled to USDA-ARS Dale Bumpers National Rice Research Center (DB NRRC) in Stuttgart, AR June 15-17, 2009. Genevieve’s visit included presenting a talk (PDF here) about what’s new with the Genetic Diversity module and how it can be used to mine data important to rice breeding projects. Another [...]
A new and improved Gramene Genetic Diversity website was rolled out today. The major goal of the overhaul was to increase database browsability, which the new ‘Database summary’ table achieves nicely by offering an overview of data for each species as well as hyperlinks to the data sets themselves. Also new is an area called [...]