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Sample GSM1637449 Query DataSets for GSM1637449
Status Public on Feb 01, 2016
Title blood-Control_2149
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 0.001674 AB 3405.938965 3283.603027
SNP_A-1967418 AB 0.001705 AB 622.723572 576.386047
SNP_A-1969580 BB 0.003347 BB 935.552246 3443.719238
SNP_A-4263484 AB 0.009649 AB 1853.575928 1548.963379
SNP_A-1978185 AA 0.006538 AA 2157.740723 451.429749
SNP_A-4264431 AA 0.007733 AA 1352.036011 333.974060
SNP_A-1980898 AB 0.006513 AB 604.349243 554.246277
SNP_A-1983139 AA 0.000144 AA 2936.092285 775.757935
SNP_A-4265735 AB 0.007402 AB 996.998596 952.758240
SNP_A-1995832 AA 0.005774 AA 1824.091431 363.757660
SNP_A-1995893 AA 0.006025 AA 2708.294678 1328.758057
SNP_A-1997689 BB 0.006301 BB 835.253296 4719.733398
SNP_A-1997709 AA 0.002891 AA 2204.859619 404.880890
SNP_A-1997896 AA 0.002836 AA 1149.675415 595.076660
SNP_A-1997922 AA 0.008540 AA 892.059692 253.880615
SNP_A-2000230 AA 0.001914 AA 2240.339355 1467.023682
SNP_A-2000332 AB 0.002563 AB 2794.738037 2912.106445
SNP_A-2000337 AA 0.002141 AA 1320.906982 336.187378
SNP_A-2000342 AA 0.006166 AA 3772.247803 803.975342
SNP_A-4268173 AA 0.005659 AA 1127.001465 271.223541

Total number of rows: 909622

Table truncated, full table size 46134 Kbytes.




Supplementary file Size Download File type/resource
GSM1637449_2149_GenomeWideSNP_6_.CEL.gz 27.8 Mb (ftp)(http) CEL
GSM1637449_2149_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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