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Status
Public on Feb 01, 2016
Title
blood-MTC_2114
Sample type
genomic
Source name
peripheral blood
Organism
Homo sapiens Characteristics
phenotype: MTC
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
0.005139
BB
515.546265
4601.450684
SNP_A-1967418
BB
0.001043
BB
331.344330
788.405334
SNP_A-1969580
BB
0.004846
BB
944.393250
4159.850586
SNP_A-4263484
AB
0.003762
AB
1350.911743
1151.463257
SNP_A-1978185
AA
0.041822
AA
3059.926270
643.051514
SNP_A-4264431
AA
0.018094
AA
2298.339355
282.692566
SNP_A-1980898
AB
0.006215
AB
857.483215
618.548035
SNP_A-1983139
AA
0.006137
AA
2838.582275
555.532837
SNP_A-4265735
AA
0.005620
AA
1552.518433
375.804718
SNP_A-1995832
AB
0.023442
AB
848.821350
839.449402
SNP_A-1995893
AB
0.006329
AB
1550.318604
1473.714478
SNP_A-1997689
BB
0.006596
BB
563.667480
3724.015137
SNP_A-1997709
AA
0.013537
AA
1870.932373
498.829865
SNP_A-1997896
AA
0.005915
AA
1423.469727
451.354584
SNP_A-1997922
AB
0.001697
AB
649.396729
571.375732
SNP_A-2000230
AA
0.007453
AA
2306.785400
847.461182
SNP_A-2000332
AB
0.004374
AB
2969.708252
2640.961670
SNP_A-2000337
AA
0.011259
AA
1448.084473
226.074982
SNP_A-2000342
AA
0.011734
AA
3631.432617
596.570740
SNP_A-4268173
AA
0.004246
AA
1353.154053
377.902863
909622 46133 Kbytes .Supplementary file Size Download File type/resource GSM1636662_2114_GenomeWideSNP_6_.CEL.gz
26.6 Mb
(ftp) (http) CEL
GSM1636662_2114_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.9 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
