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Status
Public on Feb 01, 2016
Title
blood-Control_2875
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
0.002469
BB
791.886414
5072.555664
SNP_A-1967418
BB
0.004570
BB
276.360229
707.803345
SNP_A-1969580
BB
0.004173
BB
1108.489990
3427.574463
SNP_A-4263484
AB
0.005699
AB
1777.674927
1436.524536
SNP_A-1978185
AA
0.001877
AA
1401.406738
395.262726
SNP_A-4264431
AB
0.002946
AB
1035.654175
849.919983
SNP_A-1980898
BB
0.007278
BB
255.788300
804.967651
SNP_A-1983139
AA
0.001206
AA
3149.196045
850.725342
SNP_A-4265735
AB
0.001102
AB
1343.822021
1334.467407
SNP_A-1995832
AB
0.001006
AB
1513.544189
1322.835815
SNP_A-1995893
AB
0.005796
AB
1782.253784
2129.087402
SNP_A-1997689
BB
0.006978
BB
796.512390
4749.333496
SNP_A-1997709
AA
0.005078
AA
2437.669678
414.373383
SNP_A-1997896
AB
0.002510
AB
844.942688
1398.379395
SNP_A-1997922
AA
0.002794
AA
904.221252
366.387329
SNP_A-2000230
AA
0.001983
AA
2092.599609
1198.673462
SNP_A-2000332
AA
0.000113
AA
3495.865967
966.927490
SNP_A-2000337
AA
0.004536
AA
1180.426514
329.559998
SNP_A-2000342
AA
0.002267
AA
3524.342529
1056.210938
SNP_A-4268173
AA
0.026054
AA
1010.271240
352.853912
909622 46124 Kbytes .Supplementary file Size Download File type/resource GSM1637433_2875_GenomeWideSNP_6_.CEL.gz
27.7 Mb
(ftp) (http) CEL
GSM1637433_2875_GenomeWideSNP_6_.birdseed-v2.chp.gz
13.0 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
