The IRIC Workshop will be held on 18 January 2017 at Plant and Animal Genome Conference XXV in San Diego, California.
Talks will be given by Nickolai Alexandrov, David Edwards, Dario Copetti, Pierre Larmande, Tatiana Tatarinova and Jeremy Edwards. The talks are:
Locedie Mansueto, a developer from IRRI, will deliver a demonstration about the features of SNP-Seek on the same day at 11:00 a.m and present the scientific poster SNP-Seek Resource for Rice Research.
As we celebrate the 50th anniversary of the official release of IR8, we are pleased to announce the availability of IR8's high quality genome assembly, using whole genome shotgun sequencing. The semidwarf rice variety is considered as miracle rice for it is believed to have saved Asia from famine during the late 1960s.
You can read more about IR8, its conception, history and many more at irri website.
Another feature has been added to further assist you in your snp-seeking. Searching across the 3K panel for similar accession to particular accession is now possible.
Choose the accession of interest as reference for the rest of the 3k panel by choosing the Accession in the variety drop down menu in the Region section.
Visit our online rice snp-seek database at http://snp-seek.irri.org.
In our efforts to make our website address shorter and easier to remember, we are pleased to announce the new website address of SNP Seek.
You may access SNP Seek at http://snp-seek.irri.org/. SNP Seek may still be accessed using the old website address (http://oryzasnp.org/iric-portal) until November 2016.
Through collaboration by IRRI and the Arizona Genomics Institute, a RefSeq quality genome build for the aus N 22 was recently completed using the whole genome shotgun approach with PacBio sequencing technology. The predicted error rate is on par with that of Nipponbare (<1 error per 10,000 bases). N 22 is important for several reasons: it is heat and drought tolerant, deep-rooted and the source of a number of resources for functional genomics. The genome assembly has been uploaded to Genbank with accession number LWDA00000000. Gene annotation was done using the Maker-P pipeline, with final annotation of TE genes in process. Chloroplast and mitochondrial assemblies are also available for this build.
IRRI is collaborating with the Philippines’ Department of Science and Technology Advanced Science and Technology Institute to utilize their data storage service infrastructure. Users could now get the 3k RG data by WebDav, an extension to the popular HTTP protocol that web browsers use.
To directly use the files from the ASTI resource in your applications using HTTPS, use the URL of the file you wish to access. As an example, to access the BAM manifest file for Nipponbare reference genome named nipponbarebam_manifest.txt, type this URL in your web browser to download the file:
You can learn more about 3K data access at DOST-ASTI here.
We listed some rice sequencing projects and where to find their data set.
Check it out here.
We are thrilled to announce that King Abdullah University of Science and Technology (KAUST) joined as our newest IRIC member.