NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1637445 Query DataSets for GSM1637445
Status Public on Feb 01, 2016
Title blood-Control_2178
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 0.002023 AB 2801.564697 2688.452393
SNP_A-1967418 AB 0.002810 AB 510.356354 508.748260
SNP_A-1969580 BB 0.001443 BB 1086.890259 4120.643066
SNP_A-4263484 BB 0.014535 BB 675.958435 2447.444824
SNP_A-1978185 AA 0.001980 AA 1630.906738 496.713531
SNP_A-4264431 AB 0.004810 AB 1094.753662 726.786316
SNP_A-1980898 BB 0.002476 BB 299.911163 883.985718
SNP_A-1983139 AA 0.004361 AA 2511.475098 576.942444
SNP_A-4265735 AA 0.005770 AA 1501.612793 374.974274
SNP_A-1995832 AB 0.003615 AB 1386.486328 956.995850
SNP_A-1995893 AB 0.004288 AB 1774.636230 2049.227295
SNP_A-1997689 BB 0.007902 BB 715.933533 4678.280273
SNP_A-1997709 AA 0.002350 AA 2018.033447 351.932861
SNP_A-1997896 AA 0.002429 AA 1172.528687 598.159119
SNP_A-1997922 AB 0.001115 AB 610.580750 563.469238
SNP_A-2000230 AA 0.005377 AA 1928.767822 1060.469971
SNP_A-2000332 AB 0.007979 AB 2118.393799 2282.339111
SNP_A-2000337 AA 0.002014 AA 1461.136230 338.173462
SNP_A-2000342 AA 0.006227 AA 3150.377197 688.307068
SNP_A-4268173 AA 0.003343 AA 1305.458862 328.118439

Total number of rows: 909622

Table truncated, full table size 46140 Kbytes.




Supplementary file Size Download File type/resource
GSM1637445_2178_GenomeWideSNP_6_.CEL.gz 27.6 Mb (ftp)(http) CEL
GSM1637445_2178_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.0 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