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Sample GSM1637346 Query DataSets for GSM1637346
Status Public on Feb 01, 2016
Title blood-Control_6768
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 0.001983 AB 3492.602783 3198.819824
SNP_A-1967418 BB 0.001583 BB 367.705353 779.241455
SNP_A-1969580 BB 0.001454 BB 1091.412476 3691.435547
SNP_A-4263484 BB 0.007581 BB 532.271362 1355.153687
SNP_A-1978185 AA 0.006370 AA 1324.118896 537.429749
SNP_A-4264431 BB 0.011855 BB 956.643616 1779.625000
SNP_A-1980898 BB 0.008947 BB 375.940552 1131.859375
SNP_A-1983139 AA 0.002519 AA 3281.674805 817.796021
SNP_A-4265735 AB 0.004846 AB 1708.407349 1830.022339
SNP_A-1995832 AB 0.007278 AB 1149.761353 808.187317
SNP_A-1995893 AB 0.007699 AB 1243.714111 1726.997803
SNP_A-1997689 BB 0.022466 BB 1288.619141 4127.831543
SNP_A-1997709 AA 0.002269 AA 1495.549438 312.187927
SNP_A-1997896 AA 0.005819 AA 1082.509277 650.647522
SNP_A-1997922 AB 0.006862 AB 774.624939 655.232483
SNP_A-2000230 AB 0.004985 AB 1688.811890 2766.780762
SNP_A-2000332 AB 0.002969 AB 2410.693848 2462.812500
SNP_A-2000337 AA 0.012511 AA 1169.643066 520.262207
SNP_A-2000342 AA 0.003402 AA 3622.905518 1082.509277
SNP_A-4268173 AA 0.001752 AA 1753.706177 413.512024

Total number of rows: 909622

Table truncated, full table size 46155 Kbytes.




Supplementary file Size Download File type/resource
GSM1637346_6768_GenomeWideSNP_6_.CEL.gz 25.0 Mb (ftp)(http) CEL
GSM1637346_6768_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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