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Sample GSM1637366 Query DataSets for GSM1637366
Status Public on Feb 01, 2016
Title blood-Control_6253
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 0.001369 AB 2844.888916 3158.031982
SNP_A-1967418 BB 0.024988 BB 344.134399 1098.951050
SNP_A-1969580 BB 0.006565 BB 1376.210205 4783.685547
SNP_A-4263484 BB 0.003380 BB 622.034241 2058.324219
SNP_A-1978185 AA 0.002264 AA 1321.936035 455.252594
SNP_A-4264431 AA 0.003937 AA 2205.144775 464.703857
SNP_A-1980898 AB 0.005827 AB 856.825500 628.089905
SNP_A-1983139 AA 0.002482 AA 3225.447998 923.314148
SNP_A-4265735 AB 0.002554 AB 1154.850098 1250.944824
SNP_A-1995832 AA 0.004701 AA 1938.304688 512.449646
SNP_A-1995893 AA 0.004451 AA 2332.946045 869.994080
SNP_A-1997689 BB 0.001687 BB 746.454529 3888.334717
SNP_A-1997709 AA 0.001639 AA 1567.536011 369.165619
SNP_A-1997896 AA 0.002283 AA 1463.524292 641.641296
SNP_A-1997922 AA 0.004302 AA 947.183228 354.208130
SNP_A-2000230 AA 0.001527 AA 2319.821777 1461.353027
SNP_A-2000332 AA 0.001105 AA 3343.828613 935.233032
SNP_A-2000337 AA 0.002254 AA 1502.870361 418.496185
SNP_A-2000342 AA 0.020548 AA 4362.920898 1244.420288
SNP_A-4268173 AB 0.000747 AB 1019.283081 891.308533

Total number of rows: 909622

Table truncated, full table size 46154 Kbytes.




Supplementary file Size Download File type/resource
GSM1637366_6253_GenomeWideSNP_6_.CEL.gz 27.6 Mb (ftp)(http) CEL
GSM1637366_6253_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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