NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM670860 Query DataSets for GSM670860
Status Public on Feb 17, 2011
Title 2377_Child_Mother (GenomeWideSNP_6)
Sample type genomic
 
Source name peripheral blood
Organism Homo sapiens
Characteristics developmental state: unaffected
tissue: peripheral blood
family: 2377
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 0.001207 BB 653.162231 3372.900635
SNP_A-1967418 BB 0.001929 BB 239.700867 607.605774
SNP_A-1969580 BB 0.002179 BB 985.294983 3584.990234
SNP_A-4263484 BB 0.003532 BB 374.386780 1588.229614
SNP_A-1978185 AA 0.006265 AA 1337.749634 327.220032
SNP_A-4264431 AA 0.009901 AA 1257.249023 235.733475
SNP_A-1980898 AB 0.013481 AB 473.719238 488.398315
SNP_A-1983139 AA 0.004280 AA 2989.045654 613.931396
SNP_A-4265735 AB 0.003196 AB 839.432190 963.048401
SNP_A-1995832 AA 0.004969 AA 2040.018311 367.434998
SNP_A-1995893 AA 0.002400 AA 2281.434570 753.876587
SNP_A-1997689 BB 0.005260 BB 727.204529 3432.182617
SNP_A-1997709 AA 0.008565 AA 2654.947021 331.179108
SNP_A-1997896 AA 0.003052 AA 1166.411621 360.061005
SNP_A-1997922 AA 0.006914 AA 794.146301 181.625031
SNP_A-2000230 AA 0.001381 AA 2681.242920 1047.133301
SNP_A-2000332 AB 0.010576 AB 2144.842773 2582.588867
SNP_A-2000337 AA 0.002351 AA 1919.685303 241.347092
SNP_A-2000342 AA 0.008863 AA 3474.896484 721.524170
SNP_A-4268173 AA 0.006659 AA 1524.097656 212.341644

Total number of rows: 909622

Table truncated, full table size 46108 Kbytes.




Supplementary file Size Download File type/resource
GSM670860_2377_Mother.CEL.gz 30.0 Mb (ftp)(http) CEL
GSM670860_2377_Mother.chp.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap