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Sample GSM670857 Query DataSets for GSM670857
Status Public on Feb 17, 2011
Title 2332_Child_Mother (GenomeWideSNP_6)
Sample type genomic
 
Source name peripheral blood
Organism Homo sapiens
Characteristics developmental state: unaffected
tissue: peripheral blood
family: 2332
family member: Mother
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 0.001747 BB 643.314270 3334.191406
SNP_A-1967418 AB 0.005755 AB 540.395386 386.640320
SNP_A-1969580 BB 0.004682 BB 1218.897461 4003.937988
SNP_A-4263484 AB 0.004545 AB 1336.074951 1078.937378
SNP_A-1978185 AA 0.003938 AA 1486.883545 339.114716
SNP_A-4264431 AB 0.018580 AB 741.300598 791.921387
SNP_A-1980898 BB 0.007331 BB 169.061188 787.307800
SNP_A-1983139 AA 0.004141 AA 2957.299072 776.708801
SNP_A-4265735 AB 0.006000 AB 723.672363 790.344116
SNP_A-1995832 BB 0.005364 BB 377.782898 1598.413086
SNP_A-1995893 BB 0.009672 BB 346.344238 2300.392822
SNP_A-1997689 BB 0.003413 BB 653.555542 3360.844238
SNP_A-1997709 AA 0.011957 AA 1622.258545 175.053741
SNP_A-1997896 AA 0.001802 AA 1099.401245 411.969299
SNP_A-1997922 BB 0.005258 BB 358.118042 749.720032
SNP_A-2000230 AA 0.005241 AA 2457.252686 1059.282349
SNP_A-2000332 AA 0.009248 AA 2733.260986 832.818970
SNP_A-2000337 AA 0.001339 AA 1723.975708 268.221222
SNP_A-2000342 AA 0.008814 AA 2783.627930 728.350586
SNP_A-4268173 AA 0.003520 AA 1359.284546 203.643494

Total number of rows: 909622

Table truncated, full table size 46107 Kbytes.




Supplementary file Size Download File type/resource
GSM670857_2332_Mother.CEL.gz 29.6 Mb (ftp)(http) CEL
GSM670857_2332_Mother.chp.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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