NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1637365 Query DataSets for GSM1637365
Status Public on Feb 01, 2016
Title blood-Control_6263
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 0.003006 AB 3455.231934 2789.927979
SNP_A-1967418 AB 0.012178 AB 473.312286 569.722473
SNP_A-1969580 BB 0.006928 BB 824.359497 3958.440430
SNP_A-4263484 BB 0.004590 BB 473.312286 1472.682129
SNP_A-1978185 AA 0.002121 AA 1521.618164 493.343079
SNP_A-4264431 AB 0.012168 AB 1403.807129 1349.499634
SNP_A-1980898 AB 0.022099 AB 1019.585693 803.518127
SNP_A-1983139 AA 0.004020 AA 3120.999268 683.322327
SNP_A-4265735 AB 0.001338 AB 1395.854126 1339.730591
SNP_A-1995832 AB 0.006519 AB 1160.785156 847.288452
SNP_A-1995893 AB 0.008006 AB 1398.843872 1393.949707
SNP_A-1997689 BB 0.007383 BB 1044.957397 3453.565430
SNP_A-1997709 AA 0.006194 AA 1071.593262 268.826294
SNP_A-1997896 AA 0.001214 AA 1339.618408 542.822144
SNP_A-1997922 AB 0.055619 AB 537.467407 693.245239
SNP_A-2000230 AA 0.010055 AA 2863.112549 1512.594238
SNP_A-2000332 AA 0.002401 AA 3522.683350 845.973450
SNP_A-2000337 AA 0.003825 AA 1607.680786 351.685791
SNP_A-2000342 AA 0.024728 AA 4414.281738 693.245239
SNP_A-4268173 BB 0.000998 BB 320.010651 1190.778687

Total number of rows: 909622

Table truncated, full table size 46150 Kbytes.




Supplementary file Size Download File type/resource
GSM1637365_6263_GenomeWideSNP_6_.CEL.gz 24.6 Mb (ftp)(http) CEL
GSM1637365_6263_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.7 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap