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Sample GSM1637423 Query DataSets for GSM1637423
Status Public on Feb 01, 2016
Title blood-Control_4468
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 0.001800 BB 881.122437 5117.527344
SNP_A-1967418 AB 0.077371 AB 410.217041 488.048218
SNP_A-1969580 BB 0.007277 BB 1033.010376 3125.488281
SNP_A-4263484 BB 0.017271 BB 649.518921 2476.243164
SNP_A-1978185 AA 0.005787 AA 1644.618896 560.488464
SNP_A-4264431 AA 0.006034 AA 1444.190430 316.004181
SNP_A-1980898 BB 0.004318 BB 308.550934 802.784790
SNP_A-1983139 AA 0.002803 AA 2635.024414 634.391785
SNP_A-4265735 BB 0.003546 BB 519.544495 1603.841919
SNP_A-1995832 AB 0.006267 AB 1681.048340 1020.464722
SNP_A-1995893 AB 0.002545 AB 1487.212524 1894.515747
SNP_A-1997689 BB 0.001632 BB 873.491089 3954.863525
SNP_A-1997709 AA 0.001432 AA 1743.053711 333.159180
SNP_A-1997896 AA 0.002574 AA 1212.004150 636.477600
SNP_A-1997922 AB 0.003036 AB 608.201599 647.327087
SNP_A-2000230 AA 0.037994 AA 2122.414307 1810.541016
SNP_A-2000332 AA 0.016097 AA 3064.796143 1339.219482
SNP_A-2000337 AA 0.001223 AA 1458.245850 357.339142
SNP_A-2000342 AA 0.001303 AA 3455.331299 1012.908264
SNP_A-4268173 AB 0.003480 AB 811.644226 842.584534

Total number of rows: 909622

Table truncated, full table size 46144 Kbytes.




Supplementary file Size Download File type/resource
GSM1637423_4468_GenomeWideSNP_6_.CEL.gz 26.5 Mb (ftp)(http) CEL
GSM1637423_4468_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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