NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1636611 Query DataSets for GSM1636611
Status Public on Feb 01, 2016
Title blood-MTC_7311
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 0.008258 AB 2153.153076 2178.826904
SNP_A-1967418 BB 0.008604 BB 390.931610 687.739868
SNP_A-1969580 BB 0.018609 BB 1740.792847 4845.178711
SNP_A-4263484 BB 0.008980 BB 464.128296 1278.667969
SNP_A-1978185 AA 0.006970 AA 2049.127930 390.402679
SNP_A-4264431 AB 0.002132 AB 1399.482300 1026.108154
SNP_A-1980898 AB 0.012364 AB 850.616394 862.448181
SNP_A-1983139 AA 0.021714 AA 3180.820068 1236.350220
SNP_A-4265735 AB 0.000854 AB 1499.871948 1468.898804
SNP_A-1995832 AA 0.001000 AA 2429.994629 626.534363
SNP_A-1995893 AA 0.014205 AA 3053.533691 1117.372437
SNP_A-1997689 BB 0.014842 BB 570.721924 1916.399292
SNP_A-1997709 AA 0.003675 AA 1353.641724 291.152161
SNP_A-1997896 AA 0.003654 AA 1543.903198 643.276428
SNP_A-1997922 AA 0.036909 AA 605.155884 336.853821
SNP_A-2000230 AA 0.003886 AA 2447.363525 1116.307373
SNP_A-2000332 AB 0.015203 AB 3312.201416 3285.838623
SNP_A-2000337 AA 0.004758 AA 1135.541870 398.152222
SNP_A-2000342 AA 0.011462 AA 2815.894775 1173.312012
SNP_A-4268173 AB 0.022133 AB 1545.501465 967.055603

Total number of rows: 909622

Table truncated, full table size 46157 Kbytes.




Supplementary file Size Download File type/resource
GSM1636611_7311_GenomeWideSNP_6_.CEL.gz 28.1 Mb (ftp)(http) CEL
GSM1636611_7311_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.1 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