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Sample GSM1637374 Query DataSets for GSM1637374
Status Public on Feb 01, 2016
Title blood-Control_5974
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 0.000773 BB 1036.661255 4625.196289
SNP_A-1967418 BB 0.012546 BB 222.525543 642.282043
SNP_A-1969580 BB 0.007122 BB 750.855347 3365.260254
SNP_A-4263484 BB 0.003572 BB 717.946411 1886.722046
SNP_A-1978185 AA 0.001188 AA 1487.465454 466.595886
SNP_A-4264431 AA 0.014644 AA 1452.384766 495.268341
SNP_A-1980898 BB 0.004806 BB 379.213867 824.401245
SNP_A-1983139 AA 0.003442 AA 2999.508301 660.419922
SNP_A-4265735 AA 0.003075 AA 1725.562134 636.244446
SNP_A-1995832 BB 0.004042 BB 832.025391 1736.046509
SNP_A-1995893 BB 0.009726 BB 444.001221 1920.038818
SNP_A-1997689 BB 0.001744 BB 895.133118 3781.767822
SNP_A-1997709 AA 0.004537 AA 1307.450439 372.181580
SNP_A-1997896 AA 0.006786 AA 1051.371826 652.298279
SNP_A-1997922 BB 0.004925 BB 441.593048 837.042114
SNP_A-2000230 AA 0.001162 AA 2150.959717 1248.604004
SNP_A-2000332 AB 0.005098 AB 2121.905762 2545.265137
SNP_A-2000337 AA 0.004216 AA 1573.707397 439.402618
SNP_A-2000342 AA 0.002797 AA 3014.637451 1031.177124
SNP_A-4268173 AA 0.007964 AA 1089.085938 308.685760

Total number of rows: 909622

Table truncated, full table size 46127 Kbytes.




Supplementary file Size Download File type/resource
GSM1637374_5974_GenomeWideSNP_6_.CEL.gz 26.4 Mb (ftp)(http) CEL
GSM1637374_5974_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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