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Status
Public on Feb 01, 2016
Title
blood-Control_4468
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
0.001800
BB
881.122437
5117.527344
SNP_A-1967418
AB
0.077371
AB
410.217041
488.048218
SNP_A-1969580
BB
0.007277
BB
1033.010376
3125.488281
SNP_A-4263484
BB
0.017271
BB
649.518921
2476.243164
SNP_A-1978185
AA
0.005787
AA
1644.618896
560.488464
SNP_A-4264431
AA
0.006034
AA
1444.190430
316.004181
SNP_A-1980898
BB
0.004318
BB
308.550934
802.784790
SNP_A-1983139
AA
0.002803
AA
2635.024414
634.391785
SNP_A-4265735
BB
0.003546
BB
519.544495
1603.841919
SNP_A-1995832
AB
0.006267
AB
1681.048340
1020.464722
SNP_A-1995893
AB
0.002545
AB
1487.212524
1894.515747
SNP_A-1997689
BB
0.001632
BB
873.491089
3954.863525
SNP_A-1997709
AA
0.001432
AA
1743.053711
333.159180
SNP_A-1997896
AA
0.002574
AA
1212.004150
636.477600
SNP_A-1997922
AB
0.003036
AB
608.201599
647.327087
SNP_A-2000230
AA
0.037994
AA
2122.414307
1810.541016
SNP_A-2000332
AA
0.016097
AA
3064.796143
1339.219482
SNP_A-2000337
AA
0.001223
AA
1458.245850
357.339142
SNP_A-2000342
AA
0.001303
AA
3455.331299
1012.908264
SNP_A-4268173
AB
0.003480
AB
811.644226
842.584534
909622 46144 Kbytes .Supplementary file Size Download File type/resource GSM1637423_4468_GenomeWideSNP_6_.CEL.gz
26.5 Mb
(ftp) (http) CEL
GSM1637423_4468_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.9 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
