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Sample GSM1637444 Query DataSets for GSM1637444
Status Public on Feb 01, 2016
Title blood-Control_2209
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 0.005745 BB 860.438293 5776.666992
SNP_A-1967418 BB 0.002532 BB 348.274109 690.024292
SNP_A-1969580 BB 0.012371 BB 632.860779 3563.487793
SNP_A-4263484 AB 0.005272 AB 1564.216797 1389.952148
SNP_A-1978185 AA 0.008709 AA 1600.135620 297.442291
SNP_A-4264431 NC 0.293185 AA 1295.063965 528.083923
SNP_A-1980898 AB 0.009824 AB 924.268982 674.712036
SNP_A-1983139 AA 0.016646 AA 3799.564697 749.738098
SNP_A-4265735 AB 0.000312 AB 1371.421021 1427.029297
SNP_A-1995832 AB 0.005211 AB 1398.183228 889.178772
SNP_A-1995893 AB 0.003498 AB 1718.816162 1722.383179
SNP_A-1997689 BB 0.003012 BB 803.191711 4265.804688
SNP_A-1997709 AA 0.007040 AA 2066.040283 303.273407
SNP_A-1997896 AA 0.011977 AA 1057.372314 358.885956
SNP_A-1997922 AA 0.026399 AA 616.758240 332.813141
SNP_A-2000230 AA 0.002815 AA 2050.554688 1131.486694
SNP_A-2000332 AB 0.002966 AB 2268.313477 2609.921387
SNP_A-2000337 AA 0.001299 AA 1476.472534 362.141846
SNP_A-2000342 AA 0.010589 AA 3825.396973 679.842651
SNP_A-4268173 AB 0.002706 AB 817.496033 807.972717

Total number of rows: 909622

Table truncated, full table size 46135 Kbytes.




Supplementary file Size Download File type/resource
GSM1637444_2209_GenomeWideSNP_6_.CEL.gz 24.9 Mb (ftp)(http) CEL
GSM1637444_2209_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.7 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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