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Sample GSM670868 Query DataSets for GSM670868
Status Public on Feb 17, 2011
Title 4821_Child_Father (GenomeWideSNP_6)
Sample type genomic
 
Source name peripheral blood
Organism Homo sapiens
Characteristics developmental state: unaffected
tissue: peripheral blood
family: 4821
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 0.010121 BB 769.730469 3887.277832
SNP_A-1967418 BB 0.004549 BB 280.131287 698.534790
SNP_A-1969580 BB 0.005348 BB 872.917542 3248.375488
SNP_A-4263484 BB 0.002397 BB 431.366180 1500.672363
SNP_A-1978185 AA 0.006145 AA 1932.139893 348.964539
SNP_A-4264431 AB 0.003400 AB 1038.865845 720.853333
SNP_A-1980898 BB 0.004868 BB 180.610840 775.725342
SNP_A-1983139 AA 0.006100 AA 2737.969238 778.209167
SNP_A-4265735 AB 0.002167 AB 872.813354 956.148804
SNP_A-1995832 AB 0.002362 AB 1556.487793 1079.534546
SNP_A-1995893 AB 0.004943 AB 1655.704956 1776.253296
SNP_A-1997689 BB 0.001098 BB 686.238708 3253.156738
SNP_A-1997709 AA 0.002444 AA 2245.743652 295.552582
SNP_A-1997896 AA 0.002755 AA 1091.774414 376.226990
SNP_A-1997922 AB 0.002805 AB 603.857788 517.351929
SNP_A-2000230 AA 0.004011 AA 2505.163086 1139.445679
SNP_A-2000332 AA 0.008315 AA 3263.903320 859.790161
SNP_A-2000337 AA 0.002741 AA 1612.307129 257.812988
SNP_A-2000342 AA 0.003816 AA 2967.900391 820.316650
SNP_A-4268173 AA 0.009544 AA 1474.568726 182.739243

Total number of rows: 909622

Table truncated, full table size 46110 Kbytes.




Supplementary file Size Download File type/resource
GSM670868_4821_Father.CEL.gz 28.7 Mb (ftp)(http) CEL
GSM670868_4821_Father.chp.gz 13.0 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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