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Sample GSM731967 Query DataSets for GSM731967
Status Public on Dec 31, 2011
Title WX47-TL1 prostate tumour
Sample type genomic
 
Source name WX47-TL1
Organism Homo sapiens
Characteristics tissue: WX47-TL1
individual: WX47
Extracted molecule genomic DNA
Extraction protocol Fresh frozen samples were digested by Proteinase K and RNaseA. DNA was extracted from these samples using phenol/chroloform.
Label Biotin
Label protocol standard Affymetrix protocol
 
Hybridization protocol DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
Scan protocol The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000 7G.
Description SNP genotype data from prostate cancer patient at diagnosis
Data processing CEL files and CHP files generated by Affymetrix Genechip Operating Software. Very weakly hybridized SNPs were filtered by the same software. The signal intensity data from SNP array were analyzed by in-house software- GOLF and commerical software-Partek.
 
Submission date May 26, 2011
Last update date Dec 31, 2011
Contact name Xueying Mao
E-mail(s) x.mao@qmul.ac.uk
Organization name Queen Mary
Street address Charterhouse Square
City London
ZIP/Postal code EC1M 6BQ
Country United Kingdom
 
Platform ID GPL6801
Series (1)
GSE29569 High-resolution genome-wide copy-number analysis suggests a monoclonal origin of multi-focal prostate cancer

Data table header descriptions
ID_REF PROBE SET NAME
VALUE CALL
CONFIDENCE
FORCED CALL
SIGNAL A
SIGNAL B

Data table
ID_REF VALUE CONFIDENCE FORCED CALL SIGNAL A SIGNAL B
SNP_A-2131660 AB 0.002582 AB 2219.574707 2207.115723
SNP_A-1967418 AB 0.002411 AB 845.625977 647.640015
SNP_A-1969580 BB 0.001808 BB 1632.347900 4891.129395
SNP_A-4263484 BB 0.001151 BB 582.440063 1977.739624
SNP_A-1978185 AA 0.005333 AA 1321.855225 399.655609
SNP_A-4264431 AB 0.004140 AB 1943.756958 1228.025513
SNP_A-1980898 AB 0.000529 AB 889.114258 888.788147
SNP_A-1983139 AA 0.002108 AA 3451.541016 1014.372864
SNP_A-4265735 AA 0.002457 AA 2925.256592 804.133911
SNP_A-1995832 AA 0.001519 AA 3132.055176 634.974426
SNP_A-1995893 AA 0.004840 AA 3731.161377 1653.553101
SNP_A-1997689 BB 0.002410 BB 707.926392 2656.633545
SNP_A-1997709 AA 0.011238 AA 2146.382324 257.362610
SNP_A-1997896 AA 0.001956 AA 1757.076172 524.405273
SNP_A-1997922 AA 0.008702 AA 739.996887 218.780441
SNP_A-2000230 AA 0.002631 AA 2070.795410 911.131470
SNP_A-2000332 AA 0.022573 AA 5564.547363 779.487061
SNP_A-2000337 AA 0.001358 AA 1624.045410 417.580963
SNP_A-2000342 AA 0.000246 AA 4158.168945 1309.358765
SNP_A-4268173 AB 0.001783 AB 1313.299194 1044.672119

Total number of rows: 909622

Table truncated, full table size 46145 Kbytes.




Supplementary file Size Download File type/resource
GSM731967_WX47-TL1.CEL.gz 28.5 Mb (ftp)(http) CEL
GSM731967_WX47-TL1.chp.gz 13.2 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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