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Status
Public on Feb 01, 2016
Title
blood-Control_6778
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
0.001847
AB
2684.934326
2883.514648
SNP_A-1967418
BB
0.002071
BB
314.008423
787.113647
SNP_A-1969580
BB
0.001506
BB
1137.927368
4205.958496
SNP_A-4263484
AB
0.011930
AB
1825.316162
1011.396362
SNP_A-1978185
AA
0.001619
AA
1504.586060
480.232544
SNP_A-4264431
AB
0.003043
AB
1449.826660
1017.446716
SNP_A-1980898
AB
0.001416
AB
742.706909
618.386780
SNP_A-1983139
AA
0.002367
AA
2618.403564
687.662842
SNP_A-4265735
AA
0.001270
AA
2035.680298
579.697937
SNP_A-1995832
AB
0.002373
AB
1425.546143
1037.364990
SNP_A-1995893
AB
0.003567
AB
1383.269409
1774.653687
SNP_A-1997689
BB
0.003261
BB
864.601807
4325.658691
SNP_A-1997709
AA
0.005735
AA
1224.397339
265.302094
SNP_A-1997896
AB
0.004710
AB
1101.863770
1255.922852
SNP_A-1997922
AA
0.010285
AA
828.634460
416.296265
SNP_A-2000230
AA
0.004196
AA
2299.028564
1628.610352
SNP_A-2000332
AA
0.009199
AA
3459.449707
1293.587646
SNP_A-2000337
AA
0.009511
AA
1771.056885
442.760284
SNP_A-2000342
AA
0.007422
AA
3845.587646
1168.010742
SNP_A-4268173
AB
0.010882
AB
1065.621338
609.493225
909622 46156 Kbytes .Supplementary file Size Download File type/resource GSM1637345_6778_GenomeWideSNP_6_.CEL.gz
25.9 Mb
(ftp) (http) CEL
GSM1637345_6778_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.8 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
