GEO help: Mouse over screen elements for information.
Status
Public on Feb 01, 2016
Title
blood-Control_6263
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
0.003006
AB
3455.231934
2789.927979
SNP_A-1967418
AB
0.012178
AB
473.312286
569.722473
SNP_A-1969580
BB
0.006928
BB
824.359497
3958.440430
SNP_A-4263484
BB
0.004590
BB
473.312286
1472.682129
SNP_A-1978185
AA
0.002121
AA
1521.618164
493.343079
SNP_A-4264431
AB
0.012168
AB
1403.807129
1349.499634
SNP_A-1980898
AB
0.022099
AB
1019.585693
803.518127
SNP_A-1983139
AA
0.004020
AA
3120.999268
683.322327
SNP_A-4265735
AB
0.001338
AB
1395.854126
1339.730591
SNP_A-1995832
AB
0.006519
AB
1160.785156
847.288452
SNP_A-1995893
AB
0.008006
AB
1398.843872
1393.949707
SNP_A-1997689
BB
0.007383
BB
1044.957397
3453.565430
SNP_A-1997709
AA
0.006194
AA
1071.593262
268.826294
SNP_A-1997896
AA
0.001214
AA
1339.618408
542.822144
SNP_A-1997922
AB
0.055619
AB
537.467407
693.245239
SNP_A-2000230
AA
0.010055
AA
2863.112549
1512.594238
SNP_A-2000332
AA
0.002401
AA
3522.683350
845.973450
SNP_A-2000337
AA
0.003825
AA
1607.680786
351.685791
SNP_A-2000342
AA
0.024728
AA
4414.281738
693.245239
SNP_A-4268173
BB
0.000998
BB
320.010651
1190.778687
909622 46150 Kbytes .Supplementary file Size Download File type/resource GSM1637365_6263_GenomeWideSNP_6_.CEL.gz
24.6 Mb
(ftp) (http) CEL
GSM1637365_6263_GenomeWideSNP_6_.birdseed-v2.chp.gz
12.7 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
