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Status
Public on Feb 01, 2016
Title
blood-Control_4603
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
0.002432
BB
1054.027100
5429.233887
SNP_A-1967418
BB
0.019137
BB
314.137939
532.564575
SNP_A-1969580
BB
0.003799
BB
877.026794
3650.707031
SNP_A-4263484
AB
0.004930
AB
1620.713379
991.780701
SNP_A-1978185
AA
0.000834
AA
1687.557739
453.256897
SNP_A-4264431
AA
0.004404
AA
1508.821167
362.220490
SNP_A-1980898
AA
0.005948
AA
1344.208252
400.935150
SNP_A-1983139
AA
0.004149
AA
2486.916992
723.349487
SNP_A-4265735
AB
0.002434
AB
1183.037964
1234.732666
SNP_A-1995832
AB
0.003079
AB
1486.371948
1006.260681
SNP_A-1995893
AB
0.001539
AB
1677.607910
1811.213013
SNP_A-1997689
BB
0.000636
BB
768.516907
3695.404297
SNP_A-1997709
AA
0.002292
AA
1900.301025
409.734650
SNP_A-1997896
AA
0.009399
AA
1493.862305
418.603271
SNP_A-1997922
AB
0.006584
AB
760.737610
676.531860
SNP_A-2000230
AA
0.004476
AA
2300.142578
1642.450562
SNP_A-2000332
AA
0.008051
AA
2903.177002
1109.416016
SNP_A-2000337
AA
0.000895
AA
1367.452393
401.542786
SNP_A-2000342
AA
0.005211
AA
3407.039795
724.083008
SNP_A-4268173
AA
0.003711
AA
1264.154175
232.156494
909622 46135 Kbytes .Supplementary file Size Download File type/resource GSM1637415_4603_GenomeWideSNP_6_.CEL.gz
26.3 Mb
(ftp) (http) CEL
GSM1637415_4603_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.8 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
