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Sample GSM1637395 Query DataSets for GSM1637395
Status Public on Feb 01, 2016
Title blood-Control_5684
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 0.003704 BB 1288.140869 4496.203613
SNP_A-1967418 BB 0.002093 BB 371.822723 757.003052
SNP_A-1969580 BB 0.003089 BB 1273.645752 3900.488525
SNP_A-4263484 BB 0.002809 BB 486.125092 1699.317017
SNP_A-1978185 AA 0.008435 AA 903.984192 450.811523
SNP_A-4264431 AA 0.005562 AA 2216.347168 587.107239
SNP_A-1980898 BB 0.042648 BB 483.379791 838.973755
SNP_A-1983139 AA 0.007868 AA 2406.490967 470.778137
SNP_A-4265735 AA 0.004820 AA 2371.979980 889.049316
SNP_A-1995832 NC 0.715608 AB 1902.893311 869.830566
SNP_A-1995893 AA 0.008708 AA 2057.452148 789.660950
SNP_A-1997689 BB 0.000949 BB 851.320984 3801.532715
SNP_A-1997709 AA 0.003516 AA 1236.974854 312.787964
SNP_A-1997896 AA 0.004012 AA 1436.678101 494.376984
SNP_A-1997922 AA 0.004170 AA 944.762024 366.668945
SNP_A-2000230 AA 0.000792 AA 2206.713135 1345.460327
SNP_A-2000332 AB 0.004379 AB 2166.506348 2566.702393
SNP_A-2000337 AA 0.015670 AA 1531.852539 558.297974
SNP_A-2000342 AA 0.005794 AA 2883.765869 1096.456665
SNP_A-4268173 AA 0.000889 AA 1528.578979 307.661469

Total number of rows: 909622

Table truncated, full table size 46148 Kbytes.




Supplementary file Size Download File type/resource
GSM1637395_5684_GenomeWideSNP_6_.CEL.gz 25.7 Mb (ftp)(http) CEL
GSM1637395_5684_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.8 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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