NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1636632 Query DataSets for GSM1636632
Status Public on Feb 01, 2016
Title blood-MTC_4354
Sample type genomic
 
Source name peripheral blood
Organism Homo sapiens
Characteristics phenotype: MTC
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 0.001178 AB 2958.337646 3226.968262
SNP_A-1967418 BB 0.037920 BB 357.674835 568.735352
SNP_A-1969580 BB 0.001881 BB 1004.540771 3622.151611
SNP_A-4263484 BB 0.001733 BB 524.024231 1670.027222
SNP_A-1978185 AA 0.002013 AA 1729.972534 493.822540
SNP_A-4264431 AA 0.004325 AA 1514.445679 360.233154
SNP_A-1980898 BB 0.007489 BB 418.634460 843.596680
SNP_A-1983139 AA 0.009142 AA 3718.844238 855.109558
SNP_A-4265735 AB 0.001209 AB 1303.066284 1322.267212
SNP_A-1995832 AB 0.008074 AB 1047.131348 945.571777
SNP_A-1995893 AB 0.005102 AB 1670.027222 2114.090332
SNP_A-1997689 BB 0.006534 BB 619.452820 4149.113281
SNP_A-1997709 AA 0.003567 AA 2176.515869 360.233154
SNP_A-1997896 AA 0.010845 AA 1490.071533 398.530640
SNP_A-1997922 AB 0.007359 AB 509.646515 605.705688
SNP_A-2000230 AA 0.003120 AA 2067.955322 1068.106445
SNP_A-2000332 AA 0.001534 AA 3558.188477 1066.014404
SNP_A-2000337 AA 0.002844 AA 1404.996216 317.358826
SNP_A-2000342 AA 0.001883 AA 3509.218262 906.042358
SNP_A-4268173 AA 0.001196 AA 1589.218384 385.731750

Total number of rows: 909622

Table truncated, full table size 46144 Kbytes.




Supplementary file Size Download File type/resource
GSM1636632_4354_GenomeWideSNP_6_.CEL.gz 26.7 Mb (ftp)(http) CEL
GSM1636632_4354_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.9 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