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Sample GSM731972 Query DataSets for GSM731972
Status Public on Dec 31, 2011
Title WX73-N normal prostate
Sample type genomic
 
Source name WX73-N
Organism Homo sapiens
Characteristics tissue: normal prostate
individual: WX73
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 BB 0.007949 BB 774.709717 4194.378906
SNP_A-1967418 BB 0.002206 BB 306.618835 932.488464
SNP_A-1969580 BB 0.005773 BB 1685.631104 5974.174805
SNP_A-4263484 BB 0.004260 BB 441.630920 1782.259399
SNP_A-1978185 AA 0.001644 AA 1165.329712 298.845764
SNP_A-4264431 AA 0.001721 AA 3016.754639 614.296082
SNP_A-1980898 BB 0.000779 BB 387.420166 1604.349609
SNP_A-1983139 AA 0.002464 AA 3366.573730 934.101135
SNP_A-4265735 AA 0.004341 AA 2425.114258 603.651306
SNP_A-1995832 AB 0.003855 AB 1742.352539 1476.910889
SNP_A-1995893 AB 0.009930 AB 2430.175293 2139.083008
SNP_A-1997689 BB 0.002570 BB 648.788269 3239.431641
SNP_A-1997709 AA 0.002231 AA 1668.814453 291.714325
SNP_A-1997896 AA 0.002805 AA 2126.852539 594.937317
SNP_A-1997922 AB 0.001717 AB 735.262634 699.634155
SNP_A-2000230 AA 0.004530 AA 1947.395752 891.395569
SNP_A-2000332 AB 0.000480 AB 2959.868408 2911.468018
SNP_A-2000337 AA 0.001707 AA 1541.062012 361.433075
SNP_A-2000342 AA 0.000955 AA 4058.870605 1226.105957
SNP_A-4268173 AA 0.001354 AA 1792.451660 358.224548

Total number of rows: 909622

Table truncated, full table size 46154 Kbytes.




Supplementary file Size Download File type/resource
GSM731972_WX73-N.CEL.gz 27.9 Mb (ftp)(http) CEL
GSM731972_WX73-N.chp.gz 13.2 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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