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Platform GPL5159 Query DataSets for GPL5159
Status Public on May 29, 2007
Title NimbleGen pathogenic virus whole-genome tiling array_Patharray2
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Viruses
Manufacturer NimbleGen Systems Inc.
Manufacture protocol According to standard NimbleGen protocols.
 
Description Pathogen detection chip Patharray2 is a tiling array covering the full genomes of 35 viruses (sequence downloaded from NCBI taxonomy webpage). Pathogen recognition signatures, comprising all probes which will hybridize to a given pathogen (including all similar probes from other pathogens which are predicted to cross-hybridize) were created. There are 7 replicates of each 40-mer probe, together with hybridization controls.

The Platform data table reflects a condensed representation of the array. The complete array layout file (including the 7 replicates of each 40-mer probe) is linked as a supplementary file.
 
Submission date May 11, 2007
Last update date May 29, 2007
Contact name Christopher Wong
E-mail(s) wongc@gis.a-star.edu.sg
Phone +65 6478 8103
Organization name Genome Institute of Singapore
Street address 60 Biopolis St #02-01
City Singapore
ZIP/Postal code 138672
Country Singapore
 
Samples (40) GSM188502, GSM188503, GSM188504, GSM188505, GSM188506, GSM188507 
Series (1)
GSE7779 Optimization and Clinical Validation of a Pathogen Detection Microarray

Data table header descriptions
ID
Genome key to identify Genome
GI GI identifier
RANGE_GB GenBank.version or RefSeq.version accession number
ORGANISM Virus
RANGE_START the start position (relative to the RANGE_GB accession)
RANGE_END the end position (relative to the RANGE_GB accession)
ORF open reading frame
SPOT_ID spot identifier

Data table
ID Genome GI RANGE_GB ORGANISM RANGE_START RANGE_END ORF SPOT_ID
1-1 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 1 40
1-1e 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 6 45
1-1d 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 11 50
1-1c 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 16 55
1-1b 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 21 60
1-2 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 41 80
1-2e 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 46 85
1-2d 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 51 90
1-2c 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 56 95
1-2b 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 61 100
1-3 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 81 120
1-3e 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 86 125
1-3d 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 91 130
1-3c 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 96 135
1-3b 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 101 140
1-4 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 121 160
1-4e 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 126 165
1-4d 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 131 170
1-4c 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 136 175
1-4b 1 9629198 NC_001781.1 Human respiratory syncytial virus, complete genome 141 180

Total number of rows: 54117

Table truncated, full table size 4504 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary file Size Download File type/resource
GPL5159_complete_array_layout.txt.gz 6.8 Mb (ftp)(http) TXT

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