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Status
Public on Feb 01, 2016
Title
blood-Control_6815
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
0.009193
AB
4035.603516
4002.169189
SNP_A-1967418
BB
0.013224
BB
326.265472
567.954895
SNP_A-1969580
BB
0.003434
BB
955.866211
3409.486328
SNP_A-4263484
BB
0.001495
BB
587.255737
1911.968140
SNP_A-1978185
AA
0.003965
AA
1433.744019
517.477661
SNP_A-4264431
AA
0.004110
AA
1527.702026
390.444702
SNP_A-1980898
AB
0.001398
AB
749.766479
705.243896
SNP_A-1983139
AA
0.000791
AA
2827.647705
746.377869
SNP_A-4265735
AB
0.001890
AB
1360.773682
1546.909058
SNP_A-1995832
AB
0.000770
AB
1538.169678
1321.476929
SNP_A-1995893
AB
0.002204
AB
1662.115967
1971.715942
SNP_A-1997689
BB
0.002697
BB
742.914062
4082.645752
SNP_A-1997709
AA
0.002408
AA
1807.399902
324.103668
SNP_A-1997896
AB
0.004942
AB
749.766479
1322.566895
SNP_A-1997922
AA
0.013704
AA
1086.537720
334.836731
SNP_A-2000230
AA
0.004701
AA
2210.457275
1592.956299
SNP_A-2000332
AA
0.003235
AA
3112.700928
995.893555
SNP_A-2000337
AA
0.003764
AA
1617.640869
398.014526
SNP_A-2000342
AA
0.002590
AA
3504.968262
854.408997
SNP_A-4268173
AA
0.003243
AA
1265.589233
268.986359
909622 46131 Kbytes .Supplementary file Size Download File type/resource GSM1637344_6815_GenomeWideSNP_6_.CEL.gz
27.3 Mb
(ftp) (http) CEL
GSM1637344_6815_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.9 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
