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Sample GSM1637465 Query DataSets for GSM1637465
Status Public on Feb 01, 2016
Title blood-Control_1023
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 AB 0.025400 AB 4819.926758 4547.987793
SNP_A-1967418 AA 0.003785 AA 925.144958 384.509094
SNP_A-1969580 BB 0.001479 BB 1003.577515 3759.948975
SNP_A-4263484 BB 0.004224 BB 450.081421 1679.968506
SNP_A-1978185 AA 0.006403 AA 1837.977783 568.821289
SNP_A-4264431 AA 0.002824 AA 1859.024536 520.633972
SNP_A-1980898 BB 0.010373 BB 336.145508 1136.864624
SNP_A-1983139 AA 0.016836 AA 3637.055908 666.583740
SNP_A-4265735 AA 0.028490 AA 3171.051270 620.283203
SNP_A-1995832 AB 0.006868 AB 2019.656006 1605.334961
SNP_A-1995893 AB 0.008388 AB 1936.435059 1899.541748
SNP_A-1997689 BB 0.001285 BB 855.971497 3507.364502
SNP_A-1997709 AA 0.003166 AA 1972.631592 424.438660
SNP_A-1997896 AA 0.006354 AA 1227.070312 420.197021
SNP_A-1997922 AB 0.004330 AB 559.138550 626.865234
SNP_A-2000230 AA 0.008240 AA 2795.867432 1455.118408
SNP_A-2000332 AA 0.002855 AA 3298.849121 830.507751
SNP_A-2000337 AA 0.002356 AA 1386.774902 434.092896
SNP_A-2000342 AA 0.002845 AA 3391.562012 812.110291
SNP_A-4268173 BB 0.006448 BB 300.053528 983.050903

Total number of rows: 909622

Table truncated, full table size 46135 Kbytes.




Supplementary file Size Download File type/resource
GSM1637465_1023_GenomeWideSNP_6_.CEL.gz 31.1 Mb (ftp)(http) CEL
GSM1637465_1023_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.2 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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