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Status
Public on Feb 01, 2016
Title
blood-Control_5684
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
0.003704
BB
1288.140869
4496.203613
SNP_A-1967418
BB
0.002093
BB
371.822723
757.003052
SNP_A-1969580
BB
0.003089
BB
1273.645752
3900.488525
SNP_A-4263484
BB
0.002809
BB
486.125092
1699.317017
SNP_A-1978185
AA
0.008435
AA
903.984192
450.811523
SNP_A-4264431
AA
0.005562
AA
2216.347168
587.107239
SNP_A-1980898
BB
0.042648
BB
483.379791
838.973755
SNP_A-1983139
AA
0.007868
AA
2406.490967
470.778137
SNP_A-4265735
AA
0.004820
AA
2371.979980
889.049316
SNP_A-1995832
NC
0.715608
AB
1902.893311
869.830566
SNP_A-1995893
AA
0.008708
AA
2057.452148
789.660950
SNP_A-1997689
BB
0.000949
BB
851.320984
3801.532715
SNP_A-1997709
AA
0.003516
AA
1236.974854
312.787964
SNP_A-1997896
AA
0.004012
AA
1436.678101
494.376984
SNP_A-1997922
AA
0.004170
AA
944.762024
366.668945
SNP_A-2000230
AA
0.000792
AA
2206.713135
1345.460327
SNP_A-2000332
AB
0.004379
AB
2166.506348
2566.702393
SNP_A-2000337
AA
0.015670
AA
1531.852539
558.297974
SNP_A-2000342
AA
0.005794
AA
2883.765869
1096.456665
SNP_A-4268173
AA
0.000889
AA
1528.578979
307.661469
909622 46148 Kbytes .Supplementary file Size Download File type/resource GSM1637395_5684_GenomeWideSNP_6_.CEL.gz
25.7 Mb
(ftp) (http) CEL
GSM1637395_5684_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.8 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
