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Status
Public on May 01, 2006
Title
Viro3
Technology type
spotted oligonucleotide
Distribution
non-commercial
Organism
Viruses Manufacturer
DeRisi Lab, University of CA, San Francisco
Manufacture protocol
Spotted 70-mer nucleotides on glass.
Support
glass
Coating
polysine
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.
Web link
http://derisilab.ucsf.edu Contributor(s)
Wang D , Urisman A , Fischer KF , DeRisi JL Citation(s)
14624234 Submission date
Feb 07, 2006
Last update date
May 01, 2006
Contact name
Joe DeRisi
E-mail(s)
joe@derisilab.ucsf.edu Phone
415-476-4132
URL
http://derisilab.ucsf.edu Organization name
University of California, San Francisco
Department
Biochemistry and Biophysics
Lab
Joseph DeRisi Laboratory
Street address
City
San Francisco
State/province
CA
ZIP/Postal code
94107
Country
USA
Samples (399)
GSM95960 , GSM143430 , GSM175698 , GSM175699 , GSM175700 , GSM175701
GSM175702 ,
GSM175703 ,
GSM175704 ,
GSM175705 ,
GSM175706 ,
GSM175707 ,
GSM175708 ,
GSM175709 ,
GSM175710 ,
GSM175711 ,
GSM175712 ,
GSM175713 ,
GSM175714 ,
GSM175715 ,
GSM175716 ,
GSM175717 ,
GSM175718 ,
GSM175719 ,
GSM175720 ,
GSM175721 ,
GSM175722 ,
GSM175723 ,
GSM175724 ,
GSM175725 ,
GSM175726 ,
GSM175727 ,
GSM234694 ,
GSM234695 ,
GSM234696 ,
GSM259920 ,
GSM259921 ,
GSM259922 ,
GSM259923 ,
GSM259924 ,
GSM259925 ,
GSM259926 ,
GSM259927 ,
GSM259928 ,
GSM259929 ,
GSM259930 ,
GSM259931 ,
GSM259932 ,
GSM259933 ,
GSM259934 ,
GSM259935 ,
GSM259936 ,
GSM259937 ,
GSM259938 ,
GSM259939 ,
GSM259940 ,
GSM259941 ,
GSM259942 ,
GSM259943 ,
GSM259944 ,
GSM259945 ,
GSM259946 ,
GSM259947 ,
GSM259948 ,
GSM259949 ,
GSM259950 ,
GSM259951 ,
GSM259952 ,
GSM259953 ,
GSM259954 ,
GSM259955 ,
GSM259956 ,
GSM259957 ,
GSM259958 ,
GSM259959 ,
GSM259960 ,
GSM259961 ,
GSM259962 ,
GSM259963 ,
GSM259964 ,
GSM259965 ,
GSM259966 ,
GSM259967 ,
GSM259968 ,
GSM259969 ,
GSM259970 ,
GSM259971 ,
GSM259972 ,
GSM259973 ,
GSM259974 ,
GSM259975 ,
GSM259976 ,
GSM259977 ,
GSM259978 ,
GSM259979 ,
GSM259980 ,
GSM259981 ,
GSM259982 ,
GSM259983 ,
GSM259984 ,
GSM259985 ,
GSM259986 ,
GSM259987 ,
GSM259988 ,
GSM259989 ,
GSM259990 ,
GSM259991 ,
GSM259992 ,
GSM259993 ,
GSM259994 ,
GSM259995 ,
GSM259996 ,
GSM259997 ,
GSM259998 ,
GSM259999 ,
GSM260000 ,
GSM260001 ,
GSM260002 ,
GSM260003 ,
GSM260004 ,
GSM260005 ,
GSM260006 ,
GSM260007 ,
GSM260008 ,
GSM260009 ,
GSM260010 ,
GSM260011 ,
GSM260012 ,
GSM260013 ,
GSM260014 ,
GSM260015 ,
GSM260016 ,
GSM260017 ,
GSM260018 ,
GSM260019 ,
GSM260020 ,
GSM260021 ,
GSM260022 ,
GSM260023 ,
GSM260024 ,
GSM260025 ,
GSM260026 ,
GSM260027 ,
GSM260028 ,
GSM260029 ,
GSM260030 ,
GSM260031 ,
GSM260032 ,
GSM260033 ,
GSM260034 ,
GSM260035 ,
GSM260036 ,
GSM260037 ,
GSM260038 ,
GSM260039 ,
GSM260040 ,
GSM260041 ,
GSM260042 ,
GSM260043 ,
GSM260044 ,
GSM260045 ,
GSM260046 ,
GSM260047 ,
GSM260048 ,
GSM260049 ,
GSM260050 ,
GSM260051 ,
GSM260052 ,
GSM260053 ,
GSM260054 ,
GSM260055 ,
GSM260056 ,
GSM260057 ,
GSM260058 ,
GSM260059 ,
GSM260060 ,
GSM260061 ,
GSM260062 ,
GSM260063 ,
GSM260064 ,
GSM260065 ,
GSM260066 ,
GSM260067 ,
GSM260068 ,
GSM260069 ,
GSM260070 ,
GSM260071 ,
GSM260072 ,
GSM260073 ,
GSM260074 ,
GSM260075 ,
GSM260076 ,
GSM260077 ,
GSM260078 ,
GSM260079 ,
GSM260080 ,
GSM260081 ,
GSM260082 ,
GSM260083 ,
GSM260084 ,
GSM260085 ,
GSM260086 ,
GSM260087 ,
GSM260088 ,
GSM260089 ,
GSM260090 ,
GSM260091 ,
GSM260092 ,
GSM260093 ,
GSM260094 ,
GSM260095 ,
GSM260096 ,
GSM260097 ,
GSM260098 ,
GSM260099 ,
GSM260100 ,
GSM260101 ,
GSM260102 ,
GSM260103 ,
GSM260104 ,
GSM260105 ,
GSM260106 ,
GSM260107 ,
GSM260108 ,
GSM260109 ,
GSM260110 ,
GSM260111 ,
GSM260112 ,
GSM260113 ,
GSM260114 ,
GSM260115 ,
GSM260116 ,
GSM260117 ,
GSM260118 ,
GSM260119 ,
GSM260120 ,
GSM260121 ,
GSM260122 ,
GSM260123 ,
GSM260124 ,
GSM260125 ,
GSM260126 ,
GSM260127 ,
GSM260128 ,
GSM260129 ,
GSM260130 ,
GSM260131 ,
GSM260132 ,
GSM260133 ,
GSM260134 ,
GSM260135 ,
GSM260136 ,
GSM260137 ,
GSM260138 ,
GSM260139 ,
GSM260140 ,
GSM260141 ,
GSM260142 ,
GSM260143 ,
GSM260144 ,
GSM260145 ,
GSM260146 ,
GSM260147 ,
GSM260148 ,
GSM260149 ,
GSM260150 ,
GSM260151 ,
GSM260152 ,
GSM260153 ,
GSM260154 ,
GSM260155 ,
GSM260156 ,
GSM260157 ,
GSM260158 ,
GSM260159 ,
GSM260160 ,
GSM260161 ,
GSM260162 ,
GSM260163 ,
GSM260164 ,
GSM260165 ,
GSM260166 ,
GSM260167 ,
GSM260168 ,
GSM260169 ,
GSM260170 ,
GSM260171 ,
GSM260172 ,
GSM260173 ,
GSM260174 ,
GSM260175 ,
GSM260176 ,
GSM260177 ,
GSM260178 ,
GSM260179 ,
GSM260180 ,
GSM260181 ,
GSM260182 ,
GSM260183 ,
GSM260184 ,
GSM260185 ,
GSM260186 ,
GSM260187 ,
GSM260188 ,
GSM260189 ,
GSM260190 ,
GSM260191 ,
GSM260192 ,
GSM260193 ,
GSM260194 ,
GSM260195 ,
GSM260196 ,
GSM260197 ,
GSM291246 ,
GSM291247 ,
GSM291248 ,
GSM680111 ,
GSM680112 ,
GSM680113 ,
GSM680114 ,
GSM680115 ,
GSM680116 ,
GSM680117 ,
GSM680118 ,
GSM680119 ,
GSM680120 ,
GSM680121 ,
GSM680122 ,
GSM680123 ,
GSM680124 ,
GSM680125 ,
GSM680126 ,
GSM680127 ,
GSM680128 ,
GSM680129 ,
GSM680130 ,
GSM680131 ,
GSM680132 ,
GSM680133 ,
GSM680134 ,
GSM680135 ,
GSM680136 ,
GSM680137 ,
GSM680138 ,
GSM680139 ,
GSM680140 ,
GSM680141 ,
GSM680142 ,
GSM680143 ,
GSM680144 ,
GSM680145 ,
GSM680146 ,
GSM680147 ,
GSM680148 ,
GSM680149 ,
GSM680150 ,
GSM683657 ,
GSM683658 ,
GSM683659 ,
GSM683660 ,
GSM683661 ,
GSM683662 ,
GSM683663 ,
GSM683664 ,
GSM683665 ,
GSM683666 ,
GSM683667 ,
GSM683668 ,
GSM683669 ,
GSM683670 ,
GSM683671 ,
GSM683672 ,
GSM683673 ,
GSM683674 ,
GSM683675 ,
GSM683676 ,
GSM683677 ,
GSM683678 ,
GSM683679 ,
GSM683680 ,
GSM683681 ,
GSM683682 ,
GSM683683 ,
GSM683684 ,
GSM683685 ,
GSM683686 ,
GSM683687 ,
GSM683688 ,
GSM683689 ,
GSM683690 ,
GSM683691 ,
GSM683692 ,
GSM683693 ,
GSM683694 ,
GSM683695 ,
GSM683696 ,
GSM683697 ,
GSM683698 ,
GSM683699 Series (8)
GSE4191 Series1
GSE6214 Human metapneumovirus strain associated with critical respiratory illness in an elderly male with leukemia Stanford HMPV
GSE7301 NATURI V1 Nasal Lavage - Viro3
GSE8053 Pan-viral screening of respiratory tract infections in asthmatic and non-asthmatic adults
GSE9238 SWCoV1 series; viral detection in Beluga whale liver
GSE10294 Pediatric RTIs
GSE11569 Human respiratory and stool specimens used to detect cardioviruses
GSE27578 IPF AEx Series
Data table header descriptions ID UID:OCCUR Oligo ID : Occurence on the array
OLIGO_ID Oligo ID (UID)
GI GenBank gi number of sequence used to design oligonucleotide probe
NAME Oligonucleotide annotation - viral species name in most cases
SEQUENCE Oligonucleotide Sequence
TYPE Oligonucleotide origin and design attributes
SPOT_ID spot identifier
21888 3170 Kbytes .Supplementary data files not provided
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