NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1637355 Query DataSets for GSM1637355
Status Public on Feb 01, 2016
Title blood-Control_6446
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 BB 0.002221 BB 959.303040 5325.419434
SNP_A-1967418 BB 0.002663 BB 329.401794 671.555237
SNP_A-1969580 BB 0.020010 BB 864.110657 2526.512451
SNP_A-4263484 BB 0.007938 BB 706.598389 2291.197998
SNP_A-1978185 AA 0.002321 AA 1774.336670 497.100433
SNP_A-4264431 AA 0.004318 AA 1520.698242 398.229858
SNP_A-1980898 BB 0.009345 BB 266.699158 738.841431
SNP_A-1983139 AA 0.004199 AA 2622.093262 576.390320
SNP_A-4265735 AA 0.002498 AA 1871.689575 500.523712
SNP_A-1995832 AB 0.001364 AB 1497.479736 1119.757690
SNP_A-1995893 AB 0.002770 AB 1749.466064 1928.333618
SNP_A-1997689 BB 0.006249 BB 822.823486 4704.036133
SNP_A-1997709 AA 0.002809 AA 2137.336426 367.272888
SNP_A-1997896 AA 0.001696 AA 1337.953247 648.372314
SNP_A-1997922 AB 0.013948 AB 853.738342 623.702881
SNP_A-2000230 AB 0.007378 AB 1565.645752 2805.477783
SNP_A-2000332 AB 0.003693 AB 2422.915771 2407.871094
SNP_A-2000337 AA 0.004136 AA 1240.286255 315.354919
SNP_A-2000342 AA 0.002114 AA 3567.793701 938.382446
SNP_A-4268173 AB 0.005737 AB 677.443909 715.408081

Total number of rows: 909622

Table truncated, full table size 46136 Kbytes.




Supplementary file Size Download File type/resource
GSM1637355_6446_GenomeWideSNP_6_.CEL.gz 27.8 Mb (ftp)(http) CEL
GSM1637355_6446_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