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Status
Public on Feb 01, 2016
Title
blood-Control_6252
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
0.002110
BB
1185.845093
5285.969727
SNP_A-1967418
BB
0.001614
BB
346.413879
710.838135
SNP_A-1969580
BB
0.001301
BB
1112.174316
4145.509766
SNP_A-4263484
AB
0.003014
AB
1634.179321
1071.717773
SNP_A-1978185
AA
0.005601
AA
1020.363342
396.190430
SNP_A-4264431
AA
0.004145
AA
2142.615234
412.949707
SNP_A-1980898
AB
0.003738
AB
788.517700
755.233826
SNP_A-1983139
AA
0.003561
AA
3059.353271
675.262146
SNP_A-4265735
BB
0.003738
BB
585.507385
2049.825928
SNP_A-1995832
AA
0.070704
AA
1817.825562
656.389587
SNP_A-1995893
AA
0.004817
AA
2125.046631
932.447571
SNP_A-1997689
BB
0.001739
BB
862.460815
4023.133057
SNP_A-1997709
AA
0.007239
AA
1546.745728
257.130951
SNP_A-1997896
AA
0.000584
AA
1306.294800
562.586182
SNP_A-1997922
AA
0.009251
AA
909.968628
441.765625
SNP_A-2000230
AA
0.007371
AA
2692.742920
1688.715820
SNP_A-2000332
BB
0.000741
BB
1401.967651
3928.500732
SNP_A-2000337
AA
0.006537
AA
1721.521973
364.970490
SNP_A-2000342
AA
0.005803
AA
3870.646973
1042.405762
SNP_A-4268173
AA
0.004394
AA
1463.361206
214.553497
909622 46156 Kbytes .Supplementary file Size Download File type/resource GSM1637469_6252_GenomeWideSNP_6_.CEL.gz
25.4 Mb
(ftp) (http) CEL
GSM1637469_6252_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.8 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
