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Status
Public on Feb 01, 2016
Title
blood-Control_1303
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
0.009963
BB
1087.645630
6419.593262
SNP_A-1967418
BB
0.004732
BB
403.772736
792.645264
SNP_A-1969580
BB
0.006179
BB
1215.681641
3477.406250
SNP_A-4263484
AB
0.003777
AB
1775.229248
1291.342773
SNP_A-1978185
AA
0.004094
AA
1124.692505
418.246338
SNP_A-4264431
AA
0.003653
AA
1661.891357
476.809753
SNP_A-1980898
AB
0.004157
AB
632.758301
589.408691
SNP_A-1983139
AA
0.006879
AA
3686.180176
935.369507
SNP_A-4265735
AA
0.033422
AA
3605.203369
856.918579
SNP_A-1995832
AB
0.025859
AB
2320.367188
2173.037354
SNP_A-1995893
AB
0.053526
AB
2415.436035
2611.358887
SNP_A-1997689
BB
0.005528
BB
938.860046
3059.580078
SNP_A-1997709
AA
0.004012
AA
2320.901367
392.569031
SNP_A-1997896
AA
0.012979
AA
826.844666
541.092346
SNP_A-1997922
AB
0.002292
AB
679.606018
631.752136
SNP_A-2000230
AA
0.004227
AA
2028.962036
1335.643433
SNP_A-2000332
AA
0.002782
AA
3880.460449
1040.164673
SNP_A-2000337
AA
0.001740
AA
1327.595459
344.047424
SNP_A-2000342
AA
0.003430
AA
2901.001709
937.885925
SNP_A-4268173
AA
0.007081
AA
1110.138550
305.212067
909622 46120 Kbytes .Supplementary file Size Download File type/resource GSM1637463_1303_GenomeWideSNP_6_.CEL.gz
29.4 Mb
(ftp) (http) CEL
GSM1637463_1303_GenomeWideSNP_6_.birdseed-v2.chp.gz
13.1 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
