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Status
Public on Feb 01, 2016
Title
blood-Control_1023
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
AB
0.025400
AB
4819.926758
4547.987793
SNP_A-1967418
AA
0.003785
AA
925.144958
384.509094
SNP_A-1969580
BB
0.001479
BB
1003.577515
3759.948975
SNP_A-4263484
BB
0.004224
BB
450.081421
1679.968506
SNP_A-1978185
AA
0.006403
AA
1837.977783
568.821289
SNP_A-4264431
AA
0.002824
AA
1859.024536
520.633972
SNP_A-1980898
BB
0.010373
BB
336.145508
1136.864624
SNP_A-1983139
AA
0.016836
AA
3637.055908
666.583740
SNP_A-4265735
AA
0.028490
AA
3171.051270
620.283203
SNP_A-1995832
AB
0.006868
AB
2019.656006
1605.334961
SNP_A-1995893
AB
0.008388
AB
1936.435059
1899.541748
SNP_A-1997689
BB
0.001285
BB
855.971497
3507.364502
SNP_A-1997709
AA
0.003166
AA
1972.631592
424.438660
SNP_A-1997896
AA
0.006354
AA
1227.070312
420.197021
SNP_A-1997922
AB
0.004330
AB
559.138550
626.865234
SNP_A-2000230
AA
0.008240
AA
2795.867432
1455.118408
SNP_A-2000332
AA
0.002855
AA
3298.849121
830.507751
SNP_A-2000337
AA
0.002356
AA
1386.774902
434.092896
SNP_A-2000342
AA
0.002845
AA
3391.562012
812.110291
SNP_A-4268173
BB
0.006448
BB
300.053528
983.050903
909622 46135 Kbytes .Supplementary file Size Download File type/resource GSM1637465_1023_GenomeWideSNP_6_.CEL.gz
31.1 Mb
(ftp) (http) CEL
GSM1637465_1023_GenomeWideSNP_6_.birdseed-v2.chp.gz
13.2 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
