title: Viro3
status: Public on May 01 2006
contact.city: San Francisco
contact.first: Joe
contact.last: DeRisi
contact.email: joe@derisilab.ucsf.edu
contact.state: CA
contact.department: Biochemistry and Biophysics
contact.country: USA
contact.web_link: http://derisilab.ucsf.edu
contact.institute: University of California, San Francisco
contact.phone: 415-476-4132
organism: Viruses
description: This platform includes ~22,000 oligonucleotides derived from ~1200 viral species and is an extension of the MegaViro platform (GPL1834), which contained ~11,000 oligonucleotides that were designed to represent regions of highest conservation among viral genomes (Wang D, Coscoy L, et al 2002).  About 11,000 additional viral oligonucleotides were designed using all the viral sequences in GenBank as of April 2004.  The new oligos were chosen using the ViroTax system (manuscript in preparation) such that all viral taxa represented in GenBank are distinguishable using the microarray to the extent possible given differential binding energies.  This platform also includes 488 oligonucleotides from 35 bacterial species, 20 oligonucleotides from 2 human endogenous retroviruses, and 308 control oligonucleotides including 108 OPERON oligonucleotides of highly expressed human genes.
manufacture_protocol: Spotted 70-mer nucleotides on glass.