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Sample GSM1637385 Query DataSets for GSM1637385
Status Public on Feb 01, 2016
Title blood-Control_5824
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 0.002059 BB 1139.562256 5330.258301
SNP_A-1967418 BB 0.005161 BB 314.465607 869.367310
SNP_A-1969580 BB 0.002371 BB 1037.077393 3537.948975
SNP_A-4263484 BB 0.000348 BB 605.245361 1794.877930
SNP_A-1978185 AA 0.001904 AA 1531.043213 489.632172
SNP_A-4264431 AB 0.001899 AB 1276.425415 1064.145630
SNP_A-1980898 BB 0.002267 BB 301.598145 907.084290
SNP_A-1983139 AA 0.004988 AA 2493.421875 767.476074
SNP_A-4265735 AB 0.002622 AB 1533.215698 1370.305664
SNP_A-1995832 BB 0.012472 BB 816.465393 1545.511841
SNP_A-1995893 BB 0.003352 BB 473.521759 2196.967773
SNP_A-1997689 BB 0.002796 BB 938.256531 3881.141602
SNP_A-1997709 AA 0.004817 AA 1153.838989 286.342773
SNP_A-1997896 AB 0.003862 AB 929.349976 1235.114746
SNP_A-1997922 AB 0.002947 AB 694.664185 641.257019
SNP_A-2000230 AA 0.004675 AA 2601.223145 1559.504639
SNP_A-2000332 AA 0.003570 AA 3249.230469 806.321716
SNP_A-2000337 AA 0.000867 AA 1463.043213 384.269989
SNP_A-2000342 AA 0.012408 AA 3519.635742 1320.096313
SNP_A-4268173 AB 0.003187 AB 1061.848267 768.290222

Total number of rows: 909622

Table truncated, full table size 46155 Kbytes.




Supplementary file Size Download File type/resource
GSM1637385_5824_GenomeWideSNP_6_.CEL.gz 26.7 Mb (ftp)(http) CEL
GSM1637385_5824_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.9 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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