Questions? Problems? Suggestions? Click here Questions? Problems? Suggestions? Click here What’s New in ViPR September 2011 Instant count of search results in ViPR We have just added the instant result count feature, which enables you to search ViPR more quickly and more eﬃciently. Now when you select search criteria on the ViPR site, you will get instant count on how many records match your search criteria without clicking the “Search” button and running the search. The instant count is displayed just above the right corner of the light blue search box. If there are too many or not enough search results, you can quickly change the search criteria on the search page. Now you can browse genome structures for pox and herpes viruses in ViPR ViPR has launched GBrowse, a genome viewer that provides both bird’s eye and detailed views of genomes and genome annotations. In the genome browser window, you can search, scroll or zoom to a region of the genome, and view the genome annotations including protein-coding genes, Pfam domains, immune epitopes obtained from the Immune Epitope Database (IEDB) and GC content. More annotations will be added in future releases. There are two ways to access the GBrowse genome viewer: 1. When a pox or herpes virus genome is viewable in GBrowse, there is a “View in GBrowse” link on the strain details page. Follow the link to display the genome browser. 2. On the Poxviridae or Herpesviridae page, mouse-over the “Analyze & Visualize” tab in the navigation bar and click “View Genomes in GBrowse”. This will return a list of all genomes that can be viewed in GBrowse. Take a sneak peak of a herpes virus genome displayed in GBrowse at: http://www.viprbrc.org/brc/gbrowse.do?sequence Accession=NC_009334&seqLength=172764&deco rator=herpes&species=Human%20herpesvirus%2 04%20type%202 ViPR offers an easy way to search for virus Sequence Features The Sequence Feature Variant Type (SFVT) component is a unique tool in ViPR that can help you examine polymorphisms in virus proteins and identify sequence variations that may correlate with virus phenotypic characteristics. SFVTs are currently available for Dengue virus (serotype 2), Hepatitis C virus (subtype 1a), and Poxvirus (Vaccinia). ViPR has launched an SFVT search page for you to quickly search for Sequence Features of interest. To access the search page, choose Dengue, Hepatitis C virus or Poxviridae from the ViPR homepage, then mouse-over the “Search Data” tab in the navigation bar and click “Sequence Feature Variant Types”. The September 2011 release of ViPR is now available, visit www.viprbrc.org/brc/ Virus Pathogen Resource (ViPR) Find ViPR on Facebook www.facebook.com/viprbrc

VirusPathogenResource(ViPR) · Questions?Problems?Suggestions? Clickhere What’sNewinViPR September 2011 Instantcountofsearchresultsin ViPR Wehavejustaddedtheinstantresultcount feature

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Questions? Problems? Suggestions?Click hereQuestions? Problems? Suggestions?Click here

What’s New in ViPR

September2011

Instant count of search results inViPRWe have just added the instant result countfeature, which enables you to search ViPR morequickly and more efficiently.

Now when you select search criteria on the ViPRsite, you will get instant count on how manyrecords match your search criteria without clickingthe“Search”button and running the search. Theinstant count is displayed just above the rightcorner of the light blue search box.

If there are too many or not enough search results,you can quickly change the search criteria on thesearch page.

Now you can browse genomestructures for pox and herpesviruses in ViPRViPR has launched GBrowse, a genome viewer thatprovides both bird’s eye and detailed views of

genomes and genome annotations. In thegenome browser window, you can search, scroll orzoom to a region of the genome, and view thegenome annotations including protein-codinggenes, Pfam domains, immune epitopes obtainedfrom the Immune Epitope Database (IEDB) and GCcontent. More annotations will be added in futurereleases.

There are two ways to access the GBrowse genomeviewer:

1. When a pox or herpes virus genome isviewable in GBrowse, there is a“View inGBrowse”link on the strain details page.Follow the link to display the genomebrowser.

2. On the Poxviridae or Herpesviridae page,mouse-over the“Analyze & Visualize”tab inthe navigation bar and click“View Genomesin GBrowse”. This will return a list of allgenomes that can be viewed in GBrowse.

Take a sneak peak of a herpes virus genome

displayed in GBrowse at:

http://www.viprbrc.org/brc/gbrowse.do?sequenceAccession=NC_009334&seqLength=172764&decorator=herpes&species=Human%20herpesvirus%204%20type%202

ViPR offers an easy way to searchfor virus Sequence FeaturesThe Sequence Feature Variant Type (SFVT)component is a unique tool in ViPR that can helpyou examine polymorphisms in virus proteins andidentify sequence variations that may correlatewith virus phenotypic characteristics. SFVTs arecurrently available for Dengue virus (serotype 2),Hepatitis C virus (subtype 1a), and Poxvirus(Vaccinia).

ViPR has launched an SFVT search page for you toquickly search for Sequence Features of interest.To access the search page, choose Dengue,Hepatitis C virus or Poxviridae from the ViPRhomepage, then mouse-over the“Search Data”tabin the navigation bar and click“Sequence FeatureVariant Types”.

The September 2011 release ofViPR is now available, visitwww.viprbrc.org/brc/

Virus Pathogen Resource (ViPR)

Find ViPR on Facebookwww.facebook.com/viprbrc

www.facebook.com/viprbrc

http://www.viprbrc.org/brc/staticContent.do?decorator=vipr&type=ViprInfo&subtype=Contact

www.viprbrc.org/brc/

http://www.vipr-dev.org/brc/gbrowse.do?sequenceAccession=NC_009334&seqLength=172764&decorator=herpes&species=Human%20herpesvirus%204%20type%202