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Sample GSM1637433 Query DataSets for GSM1637433
Status Public on Feb 01, 2016
Title blood-Control_2875
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 BB 0.002469 BB 791.886414 5072.555664
SNP_A-1967418 BB 0.004570 BB 276.360229 707.803345
SNP_A-1969580 BB 0.004173 BB 1108.489990 3427.574463
SNP_A-4263484 AB 0.005699 AB 1777.674927 1436.524536
SNP_A-1978185 AA 0.001877 AA 1401.406738 395.262726
SNP_A-4264431 AB 0.002946 AB 1035.654175 849.919983
SNP_A-1980898 BB 0.007278 BB 255.788300 804.967651
SNP_A-1983139 AA 0.001206 AA 3149.196045 850.725342
SNP_A-4265735 AB 0.001102 AB 1343.822021 1334.467407
SNP_A-1995832 AB 0.001006 AB 1513.544189 1322.835815
SNP_A-1995893 AB 0.005796 AB 1782.253784 2129.087402
SNP_A-1997689 BB 0.006978 BB 796.512390 4749.333496
SNP_A-1997709 AA 0.005078 AA 2437.669678 414.373383
SNP_A-1997896 AB 0.002510 AB 844.942688 1398.379395
SNP_A-1997922 AA 0.002794 AA 904.221252 366.387329
SNP_A-2000230 AA 0.001983 AA 2092.599609 1198.673462
SNP_A-2000332 AA 0.000113 AA 3495.865967 966.927490
SNP_A-2000337 AA 0.004536 AA 1180.426514 329.559998
SNP_A-2000342 AA 0.002267 AA 3524.342529 1056.210938
SNP_A-4268173 AA 0.026054 AA 1010.271240 352.853912

Total number of rows: 909622

Table truncated, full table size 46124 Kbytes.




Supplementary file Size Download File type/resource
GSM1637433_2875_GenomeWideSNP_6_.CEL.gz 27.7 Mb (ftp)(http) CEL
GSM1637433_2875_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.0 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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