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Sample GSM1637455 Query DataSets for GSM1637455
Status Public on Feb 01, 2016
Title blood-Control_1626
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 0.005762 BB 533.455078 3925.061279
SNP_A-1967418 BB 0.002936 BB 370.777985 721.224731
SNP_A-1969580 BB 0.001885 BB 1049.382812 4097.328125
SNP_A-4263484 BB 0.008223 BB 786.123108 2268.685791
SNP_A-1978185 AA 0.004831 AA 1981.252319 413.083038
SNP_A-4264431 AA 0.003328 AA 1676.959473 333.512390
SNP_A-1980898 BB 0.003821 BB 282.417206 867.243774
SNP_A-1983139 AA 0.003444 AA 3261.688232 761.020569
SNP_A-4265735 AA 0.007099 AA 1302.864014 385.812042
SNP_A-1995832 AA 0.003554 AA 2350.476807 391.286407
SNP_A-1995893 AA 0.001776 AA 2337.617920 981.026794
SNP_A-1997689 BB 0.006087 BB 747.353271 4567.124023
SNP_A-1997709 AA 0.010785 AA 2525.607666 341.817261
SNP_A-1997896 AA 0.003302 AA 1123.361206 587.744812
SNP_A-1997922 AA 0.020442 AA 1158.006958 345.120392
SNP_A-2000230 AA 0.002751 AA 2044.278198 1174.938110
SNP_A-2000332 AB 0.003863 AB 2198.102295 2598.082031
SNP_A-2000337 AA 0.006204 AA 1309.249634 274.615631
SNP_A-2000342 AA 0.003139 AA 3259.313721 790.707397
SNP_A-4268173 AA 0.004684 AA 1194.301758 295.158203

Total number of rows: 909622

Table truncated, full table size 46143 Kbytes.




Supplementary file Size Download File type/resource
GSM1637455_1626_GenomeWideSNP_6_.CEL.gz 28.4 Mb (ftp)(http) CEL
GSM1637455_1626_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.0 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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