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Sample GSM731947 Query DataSets for GSM731947
Status Public on Dec 31, 2011
Title WX8-N normal prostate
Sample type genomic
 
Source name WX8-N
Organism Homo sapiens
Characteristics tissue: normal prostate
individual: WX8
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 0.008180 BB 946.790588 3741.439453
SNP_A-1967418 BB 0.002919 BB 466.501862 980.097412
SNP_A-1969580 BB 0.001163 BB 1516.113403 3520.349365
SNP_A-4263484 AB 0.001142 AB 1614.559692 1260.260376
SNP_A-1978185 AA 0.008370 AA 1115.396606 406.404480
SNP_A-4264431 AB 0.007456 AB 1092.329102 863.289001
SNP_A-1980898 BB 0.008134 BB 282.801147 1096.612061
SNP_A-1983139 AA 0.002524 AA 1596.121460 635.290283
SNP_A-4265735 AB 0.005899 AB 1482.651489 1715.232788
SNP_A-1995832 BB 0.000817 BB 811.019714 2096.854248
SNP_A-1995893 BB 0.002800 BB 699.961792 3017.958496
SNP_A-1997689 BB 0.003423 BB 789.998901 2720.677734
SNP_A-1997709 AA 0.004381 AA 1402.202759 393.093903
SNP_A-1997896 AB 0.006006 AB 880.724854 1008.455994
SNP_A-1997922 AB 0.004373 AB 645.001953 496.970917
SNP_A-2000230 AA 0.005130 AA 2335.047607 1117.713379
SNP_A-2000332 AA 0.004249 AA 3194.410156 685.967407
SNP_A-2000337 AA 0.000337 AA 1616.334229 419.938629
SNP_A-2000342 AA 0.001978 AA 2831.654541 1140.347656
SNP_A-4268173 AB 0.002791 AB 990.032166 844.171997

Total number of rows: 909622

Table truncated, full table size 46134 Kbytes.




Supplementary file Size Download File type/resource
GSM731947_WX8-N.CEL.gz 24.5 Mb (ftp)(http) CEL
GSM731947_WX8-N.chp.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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