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Sample GSM1637344 Query DataSets for GSM1637344
Status Public on Feb 01, 2016
Title blood-Control_6815
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 0.009193 AB 4035.603516 4002.169189
SNP_A-1967418 BB 0.013224 BB 326.265472 567.954895
SNP_A-1969580 BB 0.003434 BB 955.866211 3409.486328
SNP_A-4263484 BB 0.001495 BB 587.255737 1911.968140
SNP_A-1978185 AA 0.003965 AA 1433.744019 517.477661
SNP_A-4264431 AA 0.004110 AA 1527.702026 390.444702
SNP_A-1980898 AB 0.001398 AB 749.766479 705.243896
SNP_A-1983139 AA 0.000791 AA 2827.647705 746.377869
SNP_A-4265735 AB 0.001890 AB 1360.773682 1546.909058
SNP_A-1995832 AB 0.000770 AB 1538.169678 1321.476929
SNP_A-1995893 AB 0.002204 AB 1662.115967 1971.715942
SNP_A-1997689 BB 0.002697 BB 742.914062 4082.645752
SNP_A-1997709 AA 0.002408 AA 1807.399902 324.103668
SNP_A-1997896 AB 0.004942 AB 749.766479 1322.566895
SNP_A-1997922 AA 0.013704 AA 1086.537720 334.836731
SNP_A-2000230 AA 0.004701 AA 2210.457275 1592.956299
SNP_A-2000332 AA 0.003235 AA 3112.700928 995.893555
SNP_A-2000337 AA 0.003764 AA 1617.640869 398.014526
SNP_A-2000342 AA 0.002590 AA 3504.968262 854.408997
SNP_A-4268173 AA 0.003243 AA 1265.589233 268.986359

Total number of rows: 909622

Table truncated, full table size 46131 Kbytes.




Supplementary file Size Download File type/resource
GSM1637344_6815_GenomeWideSNP_6_.CEL.gz 27.3 Mb (ftp)(http) CEL
GSM1637344_6815_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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