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Sample GSM1637415 Query DataSets for GSM1637415
Status Public on Feb 01, 2016
Title blood-Control_4603
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 0.002432 BB 1054.027100 5429.233887
SNP_A-1967418 BB 0.019137 BB 314.137939 532.564575
SNP_A-1969580 BB 0.003799 BB 877.026794 3650.707031
SNP_A-4263484 AB 0.004930 AB 1620.713379 991.780701
SNP_A-1978185 AA 0.000834 AA 1687.557739 453.256897
SNP_A-4264431 AA 0.004404 AA 1508.821167 362.220490
SNP_A-1980898 AA 0.005948 AA 1344.208252 400.935150
SNP_A-1983139 AA 0.004149 AA 2486.916992 723.349487
SNP_A-4265735 AB 0.002434 AB 1183.037964 1234.732666
SNP_A-1995832 AB 0.003079 AB 1486.371948 1006.260681
SNP_A-1995893 AB 0.001539 AB 1677.607910 1811.213013
SNP_A-1997689 BB 0.000636 BB 768.516907 3695.404297
SNP_A-1997709 AA 0.002292 AA 1900.301025 409.734650
SNP_A-1997896 AA 0.009399 AA 1493.862305 418.603271
SNP_A-1997922 AB 0.006584 AB 760.737610 676.531860
SNP_A-2000230 AA 0.004476 AA 2300.142578 1642.450562
SNP_A-2000332 AA 0.008051 AA 2903.177002 1109.416016
SNP_A-2000337 AA 0.000895 AA 1367.452393 401.542786
SNP_A-2000342 AA 0.005211 AA 3407.039795 724.083008
SNP_A-4268173 AA 0.003711 AA 1264.154175 232.156494

Total number of rows: 909622

Table truncated, full table size 46135 Kbytes.




Supplementary file Size Download File type/resource
GSM1637415_4603_GenomeWideSNP_6_.CEL.gz 26.3 Mb (ftp)(http) CEL
GSM1637415_4603_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.8 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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