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Sample GSM1637443 Query DataSets for GSM1637443
Status Public on Feb 01, 2016
Title blood-Control_2216
Sample type genomic
 
Source name peripheral blood
Organism Homo sapiens
Characteristics phenotype: Control
tissue: peripheral blood
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 Y├║fera, 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 0.005543 AB 3969.419189 3305.414307
SNP_A-1967418 BB 0.003655 BB 392.452454 779.623596
SNP_A-1969580 BB 0.000761 BB 1082.280151 4004.207031
SNP_A-4263484 BB 0.006652 BB 658.941345 2224.077148
SNP_A-1978185 AA 0.006620 AA 2172.863281 462.808167
SNP_A-4264431 AA 0.005149 AA 1639.186646 292.495789
SNP_A-1980898 BB 0.001806 BB 312.765778 882.335449
SNP_A-1983139 AA 0.016073 AA 1782.834839 514.836487
SNP_A-4265735 AB 0.002013 AB 1241.104248 1254.424438
SNP_A-1995832 BB 0.003267 BB 536.751709 1803.078857
SNP_A-1995893 BB 0.004192 BB 633.762573 2771.968262
SNP_A-1997689 BB 0.010095 BB 708.026428 4852.890137
SNP_A-1997709 AA 0.002240 AA 1723.075806 319.572723
SNP_A-1997896 AA 0.002882 AA 1406.569214 512.061340
SNP_A-1997922 BB 0.017065 BB 539.826355 854.381897
SNP_A-2000230 AB 0.002573 AB 1712.470703 2264.290039
SNP_A-2000332 AB 0.000209 AB 2571.633057 2732.690918
SNP_A-2000337 AA 0.003816 AA 1572.817505 431.078796
SNP_A-2000342 AA 0.006749 AA 3729.475342 758.552246
SNP_A-4268173 AB 0.004365 AB 721.429260 700.016052

Total number of rows: 909622

Table truncated, full table size 46134 Kbytes.




Supplementary file Size Download File type/resource
GSM1637443_2216_GenomeWideSNP_6_.CEL.gz 26.3 Mb (ftp)(http) CEL
GSM1637443_2216_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.8 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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