[Arabidopsis] Gramene's 34th database build released
Pankaj Jaiswal (OSU)
(by jaiswalp from science.oregonstate.edu)
Wed Oct 19 11:35:43 EST 2011
The Gramene database team is happy to announce the 34th major release of
In our Ensembl genome browser, six genomes have been updated and we have
added Glycine max (soybean), Selaginella moellendorffii, Chlamydomonas
reinhardtii bringing us to 22 genomes.
We have also updated the genome browser to Ensembl version 62, updated
blastz-chain-net whole genome alignments for new and updated genomes,
built new Compara (homology) gene trees, and updated protein domain
annotations, cross-references and gene ontology (GO) projections.
The BioMart data mining tool has updated plant gene and variation
Our ontologies database has been updated to the latest releases of GO,
plant ontology (PO), and trait ontology (TO) and includes many new
associations to the genomes and genes of our new species.
Our Pathways section now has official release versions of MaizeCyc and
BrachyCyc, and non-plant pathways were removed from RiceCyc,SorghumCyc,
The diversity section contains a new rice study of 14 agronomic traits
from 226K SNPs across 374 lines from Huang X, et al, Nat Genet 2010, the
3.06 version of NSF Arabidopsis 2010 Project 250K chip study, phenotype
data from single-gene studies, and a new association viewer for
Arabidopsis variation data which is also linked from our Arabidopsis
Ensembl genome browser.
Several Oryza germplasm have been added to our germplasm database to
bring the total to 13,265 records with links to Gramenes markers, map
sets, genes and proteins.
Our distributed annotation server (DAS) has been updated with the latest
alignments for all our species. Please let us know if you have and
problems or question with the new build.
kclark from cshl.edu
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