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Sample GSM670856 Query DataSets for GSM670856
Status Public on Feb 17, 2011
Title 2332_Child_Father (GenomeWideSNP_6)
Sample type genomic
 
Source name peripheral blood
Organism Homo sapiens
Characteristics developmental state: unaffected
tissue: peripheral blood
family: 2332
family member: Father
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted from blood samples using the Puregene DNA kit
Label Biotin
Label protocol DNA samples were processed according to the instructions provided in the Affymetrix GeneChip® Mapping 500K Assay Manual
 
Hybridization protocol hybridized to GeneChip® Human Mapping 250K Nsp or 250K Sty arrays in an Affymetrix Hybridization Oven 640
Scan protocol images were obtained using an Affymetrix GeneChip® Scanner 3000 7G and GeneChip® Operating Software version 1.4
Data processing CNVs were identified using the Genotyping Console 3.0.1 program.
Since this program cannot perform pair-wise comparisons, we compared the results of each sample to a reference dataset generated by the combined results for the 30 parents in the 15 trios studied on the platform.
 
Submission date Feb 08, 2011
Last update date Feb 17, 2011
Contact name Tracy Tucker
E-mail(s) tbtucker@interchange.ubc.ca
Organization name University of British Columbia
Street address Box 153 4480 Oak Street
City Vancouver
ZIP/Postal code V6H3V4
Country Canada
 
Platform ID GPL6801
Series (2)
GSE27145 Prospective comparison of genome-wide aCGH platforms for the detection of CNVs in MR (GenomeWideSNP_6)
GSE27367 Prospective comparison of genome-wide aCGH platforms for the detection of CNVs in MR

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 0.004969 BB 708.763184 3298.531738
SNP_A-1967418 BB 0.004143 BB 264.084442 614.180786
SNP_A-1969580 BB 0.002515 BB 982.820190 3607.609863
SNP_A-4263484 AB 0.007607 AB 1597.999023 1060.086792
SNP_A-1978185 AB 0.004254 AB 1382.600952 1857.132080
SNP_A-4264431 AB 0.000552 AB 1003.339050 777.750549
SNP_A-1980898 AB 0.012789 AB 485.744690 403.819458
SNP_A-1983139 AA 0.004470 AA 2875.940186 775.616821
SNP_A-4265735 AA 0.011131 AA 1155.602417 375.089600
SNP_A-1995832 AB 0.010907 AB 1713.772949 1270.989868
SNP_A-1995893 AB 0.003284 AB 1418.467285 1421.520630
SNP_A-1997689 BB 0.004011 BB 740.992188 3184.493652
SNP_A-1997709 AA 0.006377 AA 1928.523682 201.157028
SNP_A-1997896 AA 0.009209 AA 1368.835083 506.976868
SNP_A-1997922 AB 0.010630 AB 558.895142 448.375549
SNP_A-2000230 AA 0.013473 AA 2445.021484 1396.391479
SNP_A-2000332 AA 0.007401 AA 3041.880859 876.893616
SNP_A-2000337 AA 0.001993 AA 1820.148804 221.201309
SNP_A-2000342 AA 0.004285 AA 3114.219238 886.654480
SNP_A-4268173 AB 0.003365 AB 855.392822 833.207947

Total number of rows: 909622

Table truncated, full table size 46112 Kbytes.




Supplementary file Size Download File type/resource
GSM670856_2332_Father.CEL.gz 29.3 Mb (ftp)(http) CEL
GSM670856_2332_Father.chp.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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