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Sample GSM1637463 Query DataSets for GSM1637463
Status Public on Feb 01, 2016
Title blood-Control_1303
Sample type genomic
 
Source name peripheral blood
Organism Homo sapiens
Characteristics phenotype: Control
tissue: peripheral blood
Treatment protocol None
Growth protocol None
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted from peripheral blood using MagNA Pure LC 2.0 System. DNA quality and quantity was assessed using a Nanodrop Spectrophotometer and agarose gel electrophoresis.
Label Biotin
Label protocol As per manufacturer (Affymetrix)
 
Hybridization protocol DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
Scan protocol The Arrays were then washed using Affymetrix fluidics stations, and images were obtained using an Affymetrix GeneChip® Scanner 3000.
Data processing CEL files were processed using Affymetrix Power Tools (APT v1.15.0) using Birdseed v2 calling algorithm.
 
Submission date Mar 18, 2015
Last update date Feb 01, 2016
Contact name Joaquin Dopazo
E-mail(s) jdopazo@cipf.es
Organization name Centro de Investigacion Principe Felipe
Department Systems Biology
Street address Eduardo Primo Y├║fera, 3
City Valencia
State/province Valencia
ZIP/Postal code 46012
Country Spain
 
Platform ID GPL6801
Series (1)
GSE67047 Genome-wide association and epistatic studies in sporadic medullary and juvenile papillary thyroid carcinomas

Data table header descriptions
ID_REF PROBE SET NAME
VALUE Genotype Call (SNP call): AA, AB, BB, NC, and NoCall
CONFIDENCE
FORCED CALL
SIGNAL A Summarized signal
SIGNAL B Summarized signal

Data table
ID_REF VALUE CONFIDENCE FORCED CALL SIGNAL A SIGNAL B
SNP_A-2131660 BB 0.009963 BB 1087.645630 6419.593262
SNP_A-1967418 BB 0.004732 BB 403.772736 792.645264
SNP_A-1969580 BB 0.006179 BB 1215.681641 3477.406250
SNP_A-4263484 AB 0.003777 AB 1775.229248 1291.342773
SNP_A-1978185 AA 0.004094 AA 1124.692505 418.246338
SNP_A-4264431 AA 0.003653 AA 1661.891357 476.809753
SNP_A-1980898 AB 0.004157 AB 632.758301 589.408691
SNP_A-1983139 AA 0.006879 AA 3686.180176 935.369507
SNP_A-4265735 AA 0.033422 AA 3605.203369 856.918579
SNP_A-1995832 AB 0.025859 AB 2320.367188 2173.037354
SNP_A-1995893 AB 0.053526 AB 2415.436035 2611.358887
SNP_A-1997689 BB 0.005528 BB 938.860046 3059.580078
SNP_A-1997709 AA 0.004012 AA 2320.901367 392.569031
SNP_A-1997896 AA 0.012979 AA 826.844666 541.092346
SNP_A-1997922 AB 0.002292 AB 679.606018 631.752136
SNP_A-2000230 AA 0.004227 AA 2028.962036 1335.643433
SNP_A-2000332 AA 0.002782 AA 3880.460449 1040.164673
SNP_A-2000337 AA 0.001740 AA 1327.595459 344.047424
SNP_A-2000342 AA 0.003430 AA 2901.001709 937.885925
SNP_A-4268173 AA 0.007081 AA 1110.138550 305.212067

Total number of rows: 909622

Table truncated, full table size 46120 Kbytes.




Supplementary file Size Download File type/resource
GSM1637463_1303_GenomeWideSNP_6_.CEL.gz 29.4 Mb (ftp)(http) CEL
GSM1637463_1303_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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