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Status
Public on Feb 01, 2016
Title
blood-Control_6768
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
0.001983
AB
3492.602783
3198.819824
SNP_A-1967418
BB
0.001583
BB
367.705353
779.241455
SNP_A-1969580
BB
0.001454
BB
1091.412476
3691.435547
SNP_A-4263484
BB
0.007581
BB
532.271362
1355.153687
SNP_A-1978185
AA
0.006370
AA
1324.118896
537.429749
SNP_A-4264431
BB
0.011855
BB
956.643616
1779.625000
SNP_A-1980898
BB
0.008947
BB
375.940552
1131.859375
SNP_A-1983139
AA
0.002519
AA
3281.674805
817.796021
SNP_A-4265735
AB
0.004846
AB
1708.407349
1830.022339
SNP_A-1995832
AB
0.007278
AB
1149.761353
808.187317
SNP_A-1995893
AB
0.007699
AB
1243.714111
1726.997803
SNP_A-1997689
BB
0.022466
BB
1288.619141
4127.831543
SNP_A-1997709
AA
0.002269
AA
1495.549438
312.187927
SNP_A-1997896
AA
0.005819
AA
1082.509277
650.647522
SNP_A-1997922
AB
0.006862
AB
774.624939
655.232483
SNP_A-2000230
AB
0.004985
AB
1688.811890
2766.780762
SNP_A-2000332
AB
0.002969
AB
2410.693848
2462.812500
SNP_A-2000337
AA
0.012511
AA
1169.643066
520.262207
SNP_A-2000342
AA
0.003402
AA
3622.905518
1082.509277
SNP_A-4268173
AA
0.001752
AA
1753.706177
413.512024
909622 46155 Kbytes .Supplementary file Size Download File type/resource GSM1637346_6768_GenomeWideSNP_6_.CEL.gz
25.0 Mb
(ftp) (http) CEL
GSM1637346_6768_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.8 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
