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Status
Public on Feb 01, 2016
Title
blood-Control_6463R
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
0.005652
BB
1047.028320
3794.243896
SNP_A-1967418
BB
0.024761
BB
387.655426
635.982422
SNP_A-1969580
BB
0.016254
BB
1679.345825
5067.126953
SNP_A-4263484
BB
0.006609
BB
514.141113
1377.403931
SNP_A-1978185
AA
0.005883
AA
1177.201660
333.165100
SNP_A-4264431
AA
0.067042
AA
1397.217529
531.567688
SNP_A-1980898
AB
0.011114
AB
536.575256
659.433289
SNP_A-1983139
AA
0.000468
AA
2970.539307
809.806091
SNP_A-4265735
AA
0.007536
AA
2814.886963
945.327332
SNP_A-1995832
AB
0.015585
AB
2210.389648
1935.776367
SNP_A-1995893
AB
0.004936
AB
1740.306885
1675.993652
SNP_A-1997689
BB
0.006001
BB
659.433289
2627.719971
SNP_A-1997709
AA
0.003010
AA
2001.416504
422.871552
SNP_A-1997896
AA
0.006641
AA
1653.999146
669.848816
SNP_A-1997922
AB
0.012956
AB
432.158752
461.554138
SNP_A-2000230
AA
0.004832
AA
1962.872314
1027.014038
SNP_A-2000332
AA
0.003525
AA
3940.986572
959.366699
SNP_A-2000337
AA
0.007597
AA
1057.100342
420.415039
SNP_A-2000342
AA
0.016461
AA
2263.333252
851.304565
SNP_A-4268173
AA
0.001528
AA
1749.632935
402.255127
909622 46141 Kbytes .Supplementary file Size Download File type/resource GSM1637354_6463R_GenomeWideSNP_6_.CEL.gz
28.5 Mb
(ftp) (http) CEL
GSM1637354_6463R_GenomeWideSNP_6_.birdseed-v2.chp.gz
13.1 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
