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Gene Ontology, Phenotype, Pathway info
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Genes, QTL & Strains related to Disease
Data mining, analysis and visualization
Phenotypes & Traits linked to the genome
Phenotype data, Assays, Husbandry and more
Pathway reports and diagrams
Featured RGD Video Tutorials

Introduction to the Variant Visualizer

The examination of SNPs has undergone a recent change, and in response to this change, RGD has released the new Variant Visualizer tool (VarVis), taking the place of the old SNPlotyper tool. VarVis is a visualization and analysis tool for sequence variation. The data currently contains 22 rat strains sequenced by 4 independent labs.

The Gene Annotator

The Gene Annotator takes a list of gene symbols, RGD IDs, GenBank accession numbers, Ensembl identifiers, and/or a chromosomal region, and retrieves annotation data from RGD. This tool will retrieve annotations from any or all ontologies used at RGD for genes and their orthologs, as well as links to additional information at other databases.

 

The Introduction to Biological Nomenclature Series

Accurate biological nomenclature is an indispensable tool used to create unambiguous annotations for genetic objects such as genes, QTLs and strains. Learn more about this valuable tool with this video series.

Click here to access RGD's Rat Community Videos page.  This page includes all of the tutorial videos that RGD has produced, plus other videos of interest to rat researchers.
 Conference Watch
FASEB Research Conference - Biology of the Immune System, Snowmass, CO, USA - June 29-July 4, 2014; Abstract Deadline: May 31, 2014
DNA Habitats and its RNA Habitants, St. Virgil, Salzburg, Austria - July 3-5, 2014; Abstract Deadline: March 1, 2014
22nd Annual International Conference on Intelligent Systems for Molecular Biology, John B. Hynes Memorial Convention Center, Boston, MA, USA - July 11-15, 2014; Abstract Deadline: March 14, 2014
Mechanisms & Models of Cancer, Cold Spring Harbor, NY, USA - August 12-16, 2014; Abstract Deadline: May 30, 2014
Regulatory and Non-coding RNAs, Cold Spring Harbor, NY, USA - August 26-30, 2014; Abstract Deadline: June 13, 2014
Molecular Genetics of Aging, Cold Spring Harbor, NY, USA - September 29-October 3, 2014; Abstract Deadline: July 18, 2014
EMBO/EMBL Symposium: The Complex Life of mRNA, EMBL Heidelberg, Germany - October 5-8, 2014; Abstract Deadline: July 10, 2014
5th International Conference on Biomedical Ontologies, The Cooley Center, Houston, TX, USA - October 6-9, 2014; Poster Submission Deadline: August 15, 2014
Cell Symposium: Regulatory RNAs, Claremont Hotel, Berkely, CA, USA - October 19-21, 2014; Abstract Deadline: June 30, 2014
Biological Data Science, Cold Spring Harbor, NY, USA - November 5-8, 2014; Abstract Deadline: August 22, 2014
AMIA Annual Symposium, Washington Hilton, Washington DC, USA - November 15-19, 2014; Submission deadline: March 13, 2014
9th Rat Genomics and Models Conference, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK - December 1-4, 2014; Abstract Deadline: October 20, 2014
The 2014 ASCB/IFCB Annual Meeting, Philadelphia Convention Center, Philadelphia, PA, USA - December 6-10, 2014; Abstract Deadline: August 5, 2014
Society of Toxicology 54th Annual Meeting, San Diego Convention Center, San Diego, CA, USA - March 22-26, 2015; Abstract Deadline: October 7, 2014
AMIA Joint Summits on Translational Science, Parc 55 Wyndham Hotel, San Francisco, CA, USA - March 23-27, 2015; Submission Deadline: September 25, 2014
                   
Ataxia Telangiectasia-mutated
(ATM) Signaling and DNA Repair
RGD announces the release of interactive diagram pages for ATM signaling and the two pathways of DNA double-strand repair. Click here for more information.
Paracetamol
Related Pathways
RGD releases five pathway diagrams for the drug paracetamol and related arachidonic acid metabolism and prostanoid biosynthesis.
Renal Disease
Portal
RGD's Renal Disease Portal is a cross-species resource that integrates genes, QTLs and strains linked to diseases such as renal hypertension, kidney neoplasms and more, as well as associated phenotypes, pathways and biological processes. Click here to explore.
p53 Signaling
and Altered p53 Signaling
RGD releases a comprehensive update for the p53 signaling pathway and a new diagram page for altered p53 signaling. Click here for details.
Organophosphate
Response Pathway Available
RGD announces the release of the organophosphate response pathway interactive page.
Variant Visualizer v5.0
Assembly Data
The Variant Visualizer tool now includes data for both RGSC3.4 and the new v5.0 rat assembly. Click here and select "RGSC Genome Assembly v5.0" from the dropdown to try it out. And don't forget--you can have your data loaded and use the tool to analyze it without it becoming public.
 Latest News
    07/22 - RGD publishes updated interactive diagram pages for the prostate cancer pathway and the altered androgen signaling pathway
    07/07 - RGD releases interactive diagram pages for a comprehensive p53 signaling pathway update and the new altered p53 signaling pathway
    06/23 - RGD releases three interactive diagram pages for ataxia telangiectasia-mutated (ATM) signaling and the two pathways of double-strand DNA break repair it promotes
    05/05 - RGD publishes new diagrams for paracetamol (acetaminophen) drug pathways and for the cyclooxygenase mediated arachidonic acid metabolism and prostanoid biosynthesis pathways that the drug affects
    04/14 - RGD publishes the interactive diagram page for the organophosphate response pathway
    04/07 - RGD releases new pathway diagrams for acetylcholine signaling via nicotinic and muscarinic receptors along with an overview of the acetylcholine signaling system
    03/13 - RGD announces the release of the Estrogen Pathway Suite
    03/12 - RGD releases three interactive diagrams for the cisplatin drug pathway and for cisplatin and bisphenol A response pathways
    02/25 - RGD publishes a new interactive diagram for the auditory mechanotransduction pathway
    02/24 - RGD releases interactive diagrams for the retinitis pigmentosa disease pathway and associated altered visual phototransduction and altered retinoid cycle metabolic pathways
    02/02 - RGD releases comprehensive updates of the tumor necrosis factor and nuclear factor kappa B signaling pathways
    01/31 - RGD announces the addition of links to PhenoGen from rat and mouse gene pages
    01/20 - RGD publishes interactive pathway diagrams for the antihyperglycemic drug metformin as well as updated AMPK signaling and Type 2 Diabetes Mellitus pathways
    12/10 - RGD announces a major website release
    12/6 - RGD announces the release of The Balancing Blood Pressure Regulatory Mechanisms Pathway Suite Network
    11/26 - The aldosterone signaling pathway interactive diagram page now available at RGD
    11/18 - RGD releases three interactive diagram pages for the kallikrein-kinin signaling cascade and kinin signaling pathways and for angiotensin II signaling via receptor type 2
    10/29 - RGD releases a comprehensive update of the canonical Wnt signaling pathway interactive diagram page and a revised page for the altered version
    10/23 - Enhanced GViewer includes six additional searchable ontologies, expanding access to QTL and ChEBI annotation-associated genetic elements
    10/21 - RGD publishes interactive pathway diagrams for the antihypertensive drug losartan
    10/18 - Variant Visualizer upgraded to accept private data
    10/14 - The GERRC accepting gene nominations for genetically modified rats
    10/04 - RGD has updated gene, strain, QTL, disease and variant data for tracks in the rat, human and mouse genome browsers
    09/30 - RGD releases a comprehensive update of the integrin mediated signaling pathway interactive diagram page
    09/27 - Photos and artwork needed for the 2014 Rat Calendar
    09/23 - RGD releases the cerium oxide nanoparticle response pathway interactive diagram
    09/11 - RGD releases the new Renal Disease Portal
    09/05 - Updated rat Rnor5.0 Chr13 annotations now available from the Havana group
    08/19 - RGD releases the titanium dioxide nanoparticle response pathway interactive diagram page
    08/19 - RGD improves links between ontology browser and pathway diagrams
    08/05 - Variant data for 28 strains now available on RGD's ftp site