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Status
Public on Feb 01, 2016
Title
blood-Control_4634
Sample type
genomic
Source name
peripheral blood
Organism
Homo sapiens Characteristics
phenotype: Control
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 Yúfera, 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
AA
0.001351
AA
5469.844727
861.868835
SNP_A-1967418
BB
0.003322
BB
334.503662
660.806274
SNP_A-1969580
BB
0.000259
BB
1094.533691
3915.605957
SNP_A-4263484
AB
0.005668
AB
1834.846313
1389.497070
SNP_A-1978185
AA
0.001547
AA
1769.205566
465.769806
SNP_A-4264431
AB
0.003446
AB
1094.533691
776.365479
SNP_A-1980898
AB
0.003891
AB
833.216858
649.171143
SNP_A-1983139
AA
0.001835
AA
2794.786621
674.173889
SNP_A-4265735
AA
0.006731
AA
1385.570557
535.182251
SNP_A-1995832
BB
0.006756
BB
622.355103
1426.471191
SNP_A-1995893
BB
0.004484
BB
490.839844
2704.417480
SNP_A-1997689
BB
0.002276
BB
843.761658
4161.293457
SNP_A-1997709
AA
0.001339
AA
1529.873413
334.503662
SNP_A-1997896
AA
0.003881
AA
1090.388306
561.884155
SNP_A-1997922
BB
0.004282
BB
556.898560
944.369934
SNP_A-2000230
AA
0.024264
AA
2071.361328
1687.252441
SNP_A-2000332
AB
0.009342
AB
2097.631348
2223.947754
SNP_A-2000337
AA
0.001785
AA
1391.804443
336.682770
SNP_A-2000342
AA
0.001958
AA
3236.595459
1071.177124
SNP_A-4268173
AB
0.001366
AB
873.134644
793.519714
909622 46136 Kbytes .Supplementary file Size Download File type/resource GSM1637414_4634_GenomeWideSNP_6_.CEL.gz
28.1 Mb
(ftp) (http) CEL
GSM1637414_4634_GenomeWideSNP_6_.birdseed-v2.chp.gz
13.0 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
