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Status
Public on Feb 01, 2016
Title
blood-Control_5974
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
BB
0.000773
BB
1036.661255
4625.196289
SNP_A-1967418
BB
0.012546
BB
222.525543
642.282043
SNP_A-1969580
BB
0.007122
BB
750.855347
3365.260254
SNP_A-4263484
BB
0.003572
BB
717.946411
1886.722046
SNP_A-1978185
AA
0.001188
AA
1487.465454
466.595886
SNP_A-4264431
AA
0.014644
AA
1452.384766
495.268341
SNP_A-1980898
BB
0.004806
BB
379.213867
824.401245
SNP_A-1983139
AA
0.003442
AA
2999.508301
660.419922
SNP_A-4265735
AA
0.003075
AA
1725.562134
636.244446
SNP_A-1995832
BB
0.004042
BB
832.025391
1736.046509
SNP_A-1995893
BB
0.009726
BB
444.001221
1920.038818
SNP_A-1997689
BB
0.001744
BB
895.133118
3781.767822
SNP_A-1997709
AA
0.004537
AA
1307.450439
372.181580
SNP_A-1997896
AA
0.006786
AA
1051.371826
652.298279
SNP_A-1997922
BB
0.004925
BB
441.593048
837.042114
SNP_A-2000230
AA
0.001162
AA
2150.959717
1248.604004
SNP_A-2000332
AB
0.005098
AB
2121.905762
2545.265137
SNP_A-2000337
AA
0.004216
AA
1573.707397
439.402618
SNP_A-2000342
AA
0.002797
AA
3014.637451
1031.177124
SNP_A-4268173
AA
0.007964
AA
1089.085938
308.685760
909622 46127 Kbytes .Supplementary file Size Download File type/resource GSM1637374_5974_GenomeWideSNP_6_.CEL.gz
26.4 Mb
(ftp) (http) CEL
GSM1637374_5974_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.9 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
