GEO help: Mouse over screen elements for information.
Status
Public on Feb 01, 2016
Title
blood-MTC_9480
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
0.001656
BB
1036.860718
5259.680664
SNP_A-1967418
BB
0.002160
BB
325.995453
816.326843
SNP_A-1969580
BB
0.002975
BB
924.402954
3790.225098
SNP_A-4263484
AB
0.005184
AB
1270.217041
925.950317
SNP_A-1978185
AA
0.001811
AA
1331.456177
430.671967
SNP_A-4264431
AB
0.004132
AB
1443.419556
1147.468506
SNP_A-1980898
AB
0.004274
AB
715.441833
551.047302
SNP_A-1983139
AA
0.006566
AA
2593.602783
508.974915
SNP_A-4265735
AA
0.004553
AA
1567.327515
595.388245
SNP_A-1995832
AB
0.002982
AB
1787.961060
1495.105225
SNP_A-1995893
AB
0.007909
AB
1866.688721
1740.145508
SNP_A-1997689
BB
0.008096
BB
512.410645
3366.454102
SNP_A-1997709
AA
0.001410
AA
1597.857056
327.926147
SNP_A-1997896
AA
0.005543
AA
1626.990356
608.497986
SNP_A-1997922
AB
0.005352
AB
484.761414
539.339050
SNP_A-2000230
AA
0.007947
AA
1888.656982
865.740540
SNP_A-2000332
AB
0.002132
AB
2833.109375
2760.402832
SNP_A-2000337
AA
0.003106
AA
1565.832153
347.498260
SNP_A-2000342
AA
0.005314
AA
3514.660156
739.236450
SNP_A-4268173
AB
0.001754
AB
998.006409
770.653625
909622 46140 Kbytes .Supplementary file Size Download File type/resource GSM1636603_9480_GenomeWideSNP_6_.CEL.gz
27.6 Mb
(ftp) (http) CEL
GSM1636603_9480_GenomeWideSNP_6_.birdseed-v2.chp.gz
13.0 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
