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Status
Public on Feb 01, 2016
Title
blood-Control_1790
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
AA
0.015157
AA
7147.907227
1199.251343
SNP_A-1967418
BB
0.006302
BB
268.029114
639.799377
SNP_A-1969580
BB
0.001590
BB
1094.429810
3676.442627
SNP_A-4263484
AA
0.010314
AA
2040.887695
561.467712
SNP_A-1978185
AA
0.005392
AA
1663.656982
555.854187
SNP_A-4264431
AA
0.008144
AA
1619.548584
534.435852
SNP_A-1980898
AA
0.008633
AA
1079.774658
461.845764
SNP_A-1983139
AA
0.004740
AA
3536.696289
920.903015
SNP_A-4265735
AA
0.013951
AA
3150.343262
859.359863
SNP_A-1995832
BB
0.009619
BB
1080.870728
2691.478271
SNP_A-1995893
BB
0.002180
BB
454.221680
2354.015381
SNP_A-1997689
BB
0.005914
BB
855.440308
2731.402832
SNP_A-1997709
AA
0.002095
AA
1845.243164
404.377289
SNP_A-1997896
AB
0.008093
AB
709.369629
1176.207886
SNP_A-1997922
AB
0.010093
AB
661.566406
723.066711
SNP_A-2000230
AA
0.005190
AA
2618.401123
1592.007202
SNP_A-2000332
AB
0.002762
AB
2515.268311
2462.173828
SNP_A-2000337
AA
0.000413
AA
1376.916260
389.528168
SNP_A-2000342
AA
0.002491
AA
3528.437256
1069.615112
SNP_A-4268173
AA
0.006241
AA
1115.737671
285.458801
909622 46139 Kbytes .Supplementary file Size Download File type/resource GSM1637453_1790_GenomeWideSNP_6_.CEL.gz
29.0 Mb
(ftp) (http) CEL
GSM1637453_1790_GenomeWideSNP_6_.birdseed-v2.chp.gz
13.1 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
