NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM670862 Query DataSets for GSM670862
Status Public on Feb 17, 2011
Title 2569_Child_Father (GenomeWideSNP_6)
Sample type genomic
 
Source name peripheral blood
Organism Homo sapiens
Characteristics developmental state: unaffected
tissue: peripheral blood
family: 2569
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 AB 0.000497 AB 2351.731445 2347.638672
SNP_A-1967418 BB 0.009400 BB 272.431946 785.226013
SNP_A-1969580 BB 0.004414 BB 1171.949829 3570.958984
SNP_A-4263484 BB 0.003483 BB 386.625061 1458.668701
SNP_A-1978185 AA 0.005971 AA 1557.898071 251.540985
SNP_A-4264431 AA 0.002744 AA 1579.905884 237.442764
SNP_A-1980898 BB 0.009544 BB 204.661835 661.628601
SNP_A-1983139 AA 0.007425 AA 2860.661865 530.064941
SNP_A-4265735 AA 0.000774 AA 1236.125488 328.029663
SNP_A-1995832 AB 0.007481 AB 1447.277710 1238.900391
SNP_A-1995893 AB 0.003515 AB 1315.237305 1414.915649
SNP_A-1997689 BB 0.003976 BB 580.066101 3099.437988
SNP_A-1997709 AA 0.005187 AA 2207.685059 224.178391
SNP_A-1997896 AB 0.002292 AB 792.865601 1265.791016
SNP_A-1997922 AA 0.001978 AA 818.530640 230.874268
SNP_A-2000230 AA 0.001087 AA 2682.054443 1176.092896
SNP_A-2000332 AB 0.003921 AB 2170.113525 2215.000977
SNP_A-2000337 AA 0.030166 AA 2196.621582 401.644592
SNP_A-2000342 AA 0.002197 AA 3022.609863 788.613831
SNP_A-4268173 AA 0.002043 AA 1416.616577 225.941299

Total number of rows: 909622

Table truncated, full table size 46111 Kbytes.




Supplementary file Size Download File type/resource
GSM670862_2569_Father.CEL.gz 29.8 Mb (ftp)(http) CEL
GSM670862_2569_Father.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