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Sample GSM1636614 Query DataSets for GSM1636614
Status Public on Feb 01, 2016
Title blood-MTC_6278b
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 0.001135 AB 3225.339111 3282.498779
SNP_A-1967418 AB 0.012275 AB 493.319702 615.656128
SNP_A-1969580 BB 0.008810 BB 1187.402100 3298.220215
SNP_A-4263484 BB 0.004762 BB 436.221313 1549.414062
SNP_A-1978185 AA 0.003591 AA 1591.453125 362.043640
SNP_A-4264431 AB 0.002707 AB 1123.651978 1014.387695
SNP_A-1980898 AB 0.003459 AB 636.695984 622.650391
SNP_A-1983139 AA 0.005898 AA 3252.560791 1034.362915
SNP_A-4265735 AA 0.000871 AA 1908.611450 614.547852
SNP_A-1995832 AB 0.000111 AB 1540.898438 1253.359619
SNP_A-1995893 AB 0.004795 AB 1357.071045 1821.907104
SNP_A-1997689 BB 0.002293 BB 817.324585 4159.836426
SNP_A-1997709 AA 0.003875 AA 2190.533203 357.657684
SNP_A-1997896 AB 0.000945 AB 960.463074 1376.416260
SNP_A-1997922 AA 0.002473 AA 849.363770 379.213867
SNP_A-2000230 AA 0.001169 AA 2174.154785 1204.396973
SNP_A-2000332 AA 0.001369 AA 3438.294922 890.733948
SNP_A-2000337 AA 0.000377 AA 1376.232788 371.594147
SNP_A-2000342 AA 0.000318 AA 3330.425049 949.199951
SNP_A-4268173 AB 0.000789 AB 1016.598938 894.789001

Total number of rows: 909622

Table truncated, full table size 46139 Kbytes.




Supplementary file Size Download File type/resource
GSM1636614_6278b_GenomeWideSNP_6_.CEL.gz 26.9 Mb (ftp)(http) CEL
GSM1636614_6278b_GenomeWideSNP_6_.birdseed-v2.chp.gz 12.9 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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