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Sample GSM1637464 Query DataSets for GSM1637464
Status Public on Feb 01, 2016
Title blood-Control_1124
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 0.010142 BB 1003.904785 6385.399414
SNP_A-1967418 BB 0.004104 BB 391.502502 751.285156
SNP_A-1969580 BB 0.001586 BB 1001.077087 3712.667969
SNP_A-4263484 AB 0.003825 AB 1387.460571 1205.440918
SNP_A-1978185 AA 0.000958 AA 1694.951660 440.474152
SNP_A-4264431 AA 0.000421 AA 1928.436768 452.578369
SNP_A-1980898 AB 0.001365 AB 780.384888 673.951843
SNP_A-1983139 AA 0.005277 AA 2688.492676 873.184265
SNP_A-4265735 AA 0.010423 AA 3032.905762 938.902649
SNP_A-1995832 AB 0.000628 AB 1625.309326 1293.488281
SNP_A-1995893 AB 0.002662 AB 1610.798584 1992.310181
SNP_A-1997689 BB 0.002095 BB 771.127625 3142.571533
SNP_A-1997709 AA 0.001793 AA 2059.162354 393.029022
SNP_A-1997896 AB 0.001359 AB 1068.175659 1506.723877
SNP_A-1997922 AA 0.004761 AA 702.162964 274.879730
SNP_A-2000230 AA 0.006855 AA 2734.601807 1523.332031
SNP_A-2000332 AA 0.000980 AA 3538.775391 1036.244507
SNP_A-2000337 AA 0.004885 AA 1279.152344 295.205475
SNP_A-2000342 AA 0.001295 AA 3417.759277 1030.166992
SNP_A-4268173 AA 0.004107 AA 1228.959595 300.203491

Total number of rows: 909622

Table truncated, full table size 46131 Kbytes.




Supplementary file Size Download File type/resource
GSM1637464_1124_GenomeWideSNP_6_.CEL.gz 28.4 Mb (ftp)(http) CEL
GSM1637464_1124_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.0 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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