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Status
Public on Feb 01, 2016
Title
blood-Control_2178
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
0.002023
AB
2801.564697
2688.452393
SNP_A-1967418
AB
0.002810
AB
510.356354
508.748260
SNP_A-1969580
BB
0.001443
BB
1086.890259
4120.643066
SNP_A-4263484
BB
0.014535
BB
675.958435
2447.444824
SNP_A-1978185
AA
0.001980
AA
1630.906738
496.713531
SNP_A-4264431
AB
0.004810
AB
1094.753662
726.786316
SNP_A-1980898
BB
0.002476
BB
299.911163
883.985718
SNP_A-1983139
AA
0.004361
AA
2511.475098
576.942444
SNP_A-4265735
AA
0.005770
AA
1501.612793
374.974274
SNP_A-1995832
AB
0.003615
AB
1386.486328
956.995850
SNP_A-1995893
AB
0.004288
AB
1774.636230
2049.227295
SNP_A-1997689
BB
0.007902
BB
715.933533
4678.280273
SNP_A-1997709
AA
0.002350
AA
2018.033447
351.932861
SNP_A-1997896
AA
0.002429
AA
1172.528687
598.159119
SNP_A-1997922
AB
0.001115
AB
610.580750
563.469238
SNP_A-2000230
AA
0.005377
AA
1928.767822
1060.469971
SNP_A-2000332
AB
0.007979
AB
2118.393799
2282.339111
SNP_A-2000337
AA
0.002014
AA
1461.136230
338.173462
SNP_A-2000342
AA
0.006227
AA
3150.377197
688.307068
SNP_A-4268173
AA
0.003343
AA
1305.458862
328.118439
909622 46140 Kbytes .Supplementary file Size Download File type/resource GSM1637445_2178_GenomeWideSNP_6_.CEL.gz
27.6 Mb
(ftp) (http) CEL
GSM1637445_2178_GenomeWideSNP_6_.birdseed-v2.chp.gz
13.0 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
