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Status
Public on Feb 01, 2016
Title
blood-Control_2216
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
0.005543
AB
3969.419189
3305.414307
SNP_A-1967418
BB
0.003655
BB
392.452454
779.623596
SNP_A-1969580
BB
0.000761
BB
1082.280151
4004.207031
SNP_A-4263484
BB
0.006652
BB
658.941345
2224.077148
SNP_A-1978185
AA
0.006620
AA
2172.863281
462.808167
SNP_A-4264431
AA
0.005149
AA
1639.186646
292.495789
SNP_A-1980898
BB
0.001806
BB
312.765778
882.335449
SNP_A-1983139
AA
0.016073
AA
1782.834839
514.836487
SNP_A-4265735
AB
0.002013
AB
1241.104248
1254.424438
SNP_A-1995832
BB
0.003267
BB
536.751709
1803.078857
SNP_A-1995893
BB
0.004192
BB
633.762573
2771.968262
SNP_A-1997689
BB
0.010095
BB
708.026428
4852.890137
SNP_A-1997709
AA
0.002240
AA
1723.075806
319.572723
SNP_A-1997896
AA
0.002882
AA
1406.569214
512.061340
SNP_A-1997922
BB
0.017065
BB
539.826355
854.381897
SNP_A-2000230
AB
0.002573
AB
1712.470703
2264.290039
SNP_A-2000332
AB
0.000209
AB
2571.633057
2732.690918
SNP_A-2000337
AA
0.003816
AA
1572.817505
431.078796
SNP_A-2000342
AA
0.006749
AA
3729.475342
758.552246
SNP_A-4268173
AB
0.004365
AB
721.429260
700.016052
909622 46134 Kbytes .Supplementary file Size Download File type/resource GSM1637443_2216_GenomeWideSNP_6_.CEL.gz
26.3 Mb
(ftp) (http) CEL
GSM1637443_2216_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.8 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
