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Sample GSM1637414 Query DataSets for GSM1637414
Status Public on Feb 01, 2016
Title blood-Control_4634
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 AA 0.001351 AA 5469.844727 861.868835
SNP_A-1967418 BB 0.003322 BB 334.503662 660.806274
SNP_A-1969580 BB 0.000259 BB 1094.533691 3915.605957
SNP_A-4263484 AB 0.005668 AB 1834.846313 1389.497070
SNP_A-1978185 AA 0.001547 AA 1769.205566 465.769806
SNP_A-4264431 AB 0.003446 AB 1094.533691 776.365479
SNP_A-1980898 AB 0.003891 AB 833.216858 649.171143
SNP_A-1983139 AA 0.001835 AA 2794.786621 674.173889
SNP_A-4265735 AA 0.006731 AA 1385.570557 535.182251
SNP_A-1995832 BB 0.006756 BB 622.355103 1426.471191
SNP_A-1995893 BB 0.004484 BB 490.839844 2704.417480
SNP_A-1997689 BB 0.002276 BB 843.761658 4161.293457
SNP_A-1997709 AA 0.001339 AA 1529.873413 334.503662
SNP_A-1997896 AA 0.003881 AA 1090.388306 561.884155
SNP_A-1997922 BB 0.004282 BB 556.898560 944.369934
SNP_A-2000230 AA 0.024264 AA 2071.361328 1687.252441
SNP_A-2000332 AB 0.009342 AB 2097.631348 2223.947754
SNP_A-2000337 AA 0.001785 AA 1391.804443 336.682770
SNP_A-2000342 AA 0.001958 AA 3236.595459 1071.177124
SNP_A-4268173 AB 0.001366 AB 873.134644 793.519714

Total number of rows: 909622

Table truncated, full table size 46136 Kbytes.




Supplementary file Size Download File type/resource
GSM1637414_4634_GenomeWideSNP_6_.CEL.gz 28.1 Mb (ftp)(http) CEL
GSM1637414_4634_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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