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Sample GSM1637459 Query DataSets for GSM1637459
Status Public on Feb 01, 2016
Title blood-Control_1504
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 0.021126 AB 4075.318604 4753.173340
SNP_A-1967418 BB 0.005676 BB 350.522949 914.834961
SNP_A-1969580 BB 0.008517 BB 1492.873657 4182.407715
SNP_A-4263484 BB 0.006730 BB 619.990112 1481.822876
SNP_A-1978185 AA 0.015761 AA 826.941467 531.649780
SNP_A-4264431 AA 0.002314 AA 1671.637207 435.399872
SNP_A-1980898 AB 0.002694 AB 697.204651 583.434326
SNP_A-1983139 AA 0.005228 AA 3550.483887 885.098755
SNP_A-4265735 AB 0.015809 AB 2194.523438 2154.324707
SNP_A-1995832 AB 0.013394 AB 2200.742432 1840.581665
SNP_A-1995893 AB 0.012515 AB 1919.563110 2306.062988
SNP_A-1997689 BB 0.005056 BB 651.138733 2788.093994
SNP_A-1997709 AA 0.002977 AA 2194.024902 412.598541
SNP_A-1997896 AB 0.008630 AB 814.002808 1104.880127
SNP_A-1997922 AA 0.009995 AA 652.058350 318.872742
SNP_A-2000230 AA 0.001190 AA 2148.020020 1251.767456
SNP_A-2000332 AA 0.002583 AA 3586.215576 847.242981
SNP_A-2000337 AA 0.001705 AA 1517.806885 377.398560
SNP_A-2000342 AA 0.003983 AA 3008.623535 1089.208008
SNP_A-4268173 AA 0.002684 AA 1427.694580 372.026184

Total number of rows: 909622

Table truncated, full table size 46134 Kbytes.




Supplementary file Size Download File type/resource
GSM1637459_1504_GenomeWideSNP_6_.CEL.gz 29.5 Mb (ftp)(http) CEL
GSM1637459_1504_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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