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Sample GSM1637356 Query DataSets for GSM1637356
Status Public on Feb 01, 2016
Title blood-Control_6421
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 0.002141 AB 3518.790527 3161.086426
SNP_A-1967418 AB 0.003395 AB 653.931824 602.402405
SNP_A-1969580 BB 0.004908 BB 828.674011 3536.725586
SNP_A-4263484 AB 0.004418 AB 1322.142334 927.003540
SNP_A-1978185 AA 0.004392 AA 1441.264404 525.325928
SNP_A-4264431 AB 0.001658 AB 1324.824219 921.301270
SNP_A-1980898 AB 0.004609 AB 653.931824 556.188599
SNP_A-1983139 AA 0.005739 AA 3085.407715 1002.949158
SNP_A-4265735 AB 0.003856 AB 1612.528320 1382.856812
SNP_A-1995832 AB 0.001303 AB 1472.521606 1308.521606
SNP_A-1995893 AB 0.008092 AB 1838.543213 1683.085327
SNP_A-1997689 BB 0.001538 BB 716.983154 3625.280518
SNP_A-1997709 AA 0.006925 AA 2016.702148 298.445770
SNP_A-1997896 AA 0.004309 AA 1184.162109 671.911987
SNP_A-1997922 AB 0.011586 AB 416.593018 531.399902
SNP_A-2000230 AA 0.003002 AA 2085.667969 1365.332642
SNP_A-2000332 BB 0.006538 BB 1383.005737 3388.936035
SNP_A-2000337 AA 0.002042 AA 1426.016724 332.972168
SNP_A-2000342 AA 0.006156 AA 2736.592529 843.120728
SNP_A-4268173 AA 0.001953 AA 1488.251099 271.408325

Total number of rows: 909622

Table truncated, full table size 46140 Kbytes.




Supplementary file Size Download File type/resource
GSM1637356_6421_GenomeWideSNP_6_.CEL.gz 26.2 Mb (ftp)(http) CEL
GSM1637356_6421_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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