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Sample GSM1637424 Query DataSets for GSM1637424
Status Public on Feb 01, 2016
Title blood-Control_4353R
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 NC 0.106689 BB 745.586182 2165.770508
SNP_A-1967418 AA 0.002390 AA 789.936035 307.259888
SNP_A-1969580 BB 0.021900 BB 1747.106323 4575.690430
SNP_A-4263484 BB 0.014811 BB 520.042847 1162.133301
SNP_A-1978185 AA 0.015630 AA 2294.521729 350.479492
SNP_A-4264431 AB 0.009512 AB 1027.254761 622.107056
SNP_A-1980898 BB 0.011709 BB 368.760803 1164.723999
SNP_A-1983139 AA 0.018161 AA 3135.427979 1192.851685
SNP_A-4265735 AA 0.008057 AA 2317.947998 956.814758
SNP_A-1995832 AB 0.008551 AB 2083.296875 1662.836060
SNP_A-1995893 AB 0.015277 AB 2076.787354 1935.839355
SNP_A-1997689 BB 0.019682 BB 582.220764 1597.782227
SNP_A-1997709 AA 0.004908 AA 1654.488037 422.518982
SNP_A-1997896 AB 0.020890 AB 1434.524292 1899.807251
SNP_A-1997922 AA 0.015038 AA 562.295471 265.850586
SNP_A-2000230 NC 0.344119 AB 1002.828308 657.211670
SNP_A-2000332 AB 0.007249 AB 2875.457764 3187.192871
SNP_A-2000337 AA 0.042693 AA 629.968140 238.323181
SNP_A-2000342 AA 0.023966 AA 2159.497803 661.812256
SNP_A-4268173 AA 0.010948 AA 2296.454346 503.460785

Total number of rows: 909622

Table truncated, full table size 46155 Kbytes.




Supplementary file Size Download File type/resource
GSM1637424_4353R_GenomeWideSNP_6_.CEL.gz 26.5 Mb (ftp)(http) CEL
GSM1637424_4353R_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.9 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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