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Status
Public on Feb 01, 2016
Title
blood-Control_5824
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
0.002059
BB
1139.562256
5330.258301
SNP_A-1967418
BB
0.005161
BB
314.465607
869.367310
SNP_A-1969580
BB
0.002371
BB
1037.077393
3537.948975
SNP_A-4263484
BB
0.000348
BB
605.245361
1794.877930
SNP_A-1978185
AA
0.001904
AA
1531.043213
489.632172
SNP_A-4264431
AB
0.001899
AB
1276.425415
1064.145630
SNP_A-1980898
BB
0.002267
BB
301.598145
907.084290
SNP_A-1983139
AA
0.004988
AA
2493.421875
767.476074
SNP_A-4265735
AB
0.002622
AB
1533.215698
1370.305664
SNP_A-1995832
BB
0.012472
BB
816.465393
1545.511841
SNP_A-1995893
BB
0.003352
BB
473.521759
2196.967773
SNP_A-1997689
BB
0.002796
BB
938.256531
3881.141602
SNP_A-1997709
AA
0.004817
AA
1153.838989
286.342773
SNP_A-1997896
AB
0.003862
AB
929.349976
1235.114746
SNP_A-1997922
AB
0.002947
AB
694.664185
641.257019
SNP_A-2000230
AA
0.004675
AA
2601.223145
1559.504639
SNP_A-2000332
AA
0.003570
AA
3249.230469
806.321716
SNP_A-2000337
AA
0.000867
AA
1463.043213
384.269989
SNP_A-2000342
AA
0.012408
AA
3519.635742
1320.096313
SNP_A-4268173
AB
0.003187
AB
1061.848267
768.290222
909622 46155 Kbytes .Supplementary file Size Download File type/resource GSM1637385_5824_GenomeWideSNP_6_.CEL.gz
26.7 Mb
(ftp) (http) CEL
GSM1637385_5824_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.9 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
