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Sample GSM731984 Query DataSets for GSM731984
Status Public on Dec 31, 2011
Title WX92-N normal prostate
Sample type genomic
 
Source name WX92-N
Organism Homo sapiens
Characteristics tissue: normal prostate
individual: WX92
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 0.016083 AB 1186.330078 1211.032471
SNP_A-1967418 AB 0.014608 AB 504.603058 313.403473
SNP_A-1969580 BB 0.050214 BB 2726.129150 5902.547852
SNP_A-4263484 AB 0.026552 AB 1271.842163 1312.886597
SNP_A-1978185 AA 0.010183 AA 1592.712280 432.632965
SNP_A-4264431 AA 0.032173 AA 863.383667 252.133270
SNP_A-1980898 AB 0.005057 AB 609.164612 614.458984
SNP_A-1983139 AB 0.092513 AB 823.665466 733.923279
SNP_A-4265735 AA 0.012198 AA 2907.662842 1159.147827
SNP_A-1995832 AB 0.026469 AB 2825.221924 3227.947510
SNP_A-1995893 AB 0.008619 AB 1088.596313 2096.249756
SNP_A-1997689 BB 0.037141 BB 871.343323 2137.345459
SNP_A-1997709 AA 0.024922 AA 698.018555 440.529053
SNP_A-1997896 AB 0.013415 AB 886.075684 901.689697
SNP_A-1997922 AB 0.017039 AB 465.435791 418.901703
SNP_A-2000230 AB 0.017118 AB 557.256775 888.517334
SNP_A-2000332 AA 0.007449 AA 5068.626465 1043.746338
SNP_A-2000337 AA 0.019739 AA 1703.385986 653.796631
SNP_A-2000342 AA 0.001829 AA 3860.147217 1239.706055
SNP_A-4268173 AB 0.006439 AB 600.022644 355.841003

Total number of rows: 909622

Table truncated, full table size 46128 Kbytes.




Supplementary file Size Download File type/resource
GSM731984_WX92-N.CEL.gz 25.2 Mb (ftp)(http) CEL
GSM731984_WX92-N.chp.gz 13.0 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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