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Sample GSM1636634 Query DataSets for GSM1636634
Status Public on Feb 01, 2016
Title blood-MTC_4223R
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 0.001462 AB 2850.350830 2782.143066
SNP_A-1967418 BB 0.004114 BB 398.623932 807.052734
SNP_A-1969580 BB 0.009126 BB 1096.515991 3126.125488
SNP_A-4263484 BB 0.009541 BB 812.384277 2296.241699
SNP_A-1978185 AA 0.017236 AA 2205.925537 653.453979
SNP_A-4264431 AB 0.001400 AB 1193.057495 867.340698
SNP_A-1980898 BB 0.000341 BB 341.169006 936.492188
SNP_A-1983139 AA 0.013305 AA 3199.273682 1151.328979
SNP_A-4265735 AA 0.008945 AA 2292.633301 968.330139
SNP_A-1995832 AA 0.004171 AA 2710.196777 676.060120
SNP_A-1995893 AA 0.006537 AA 2509.995361 1335.817505
SNP_A-1997689 BB 0.003274 BB 916.633667 4234.540527
SNP_A-1997709 AA 0.030512 AA 2668.192139 598.781067
SNP_A-1997896 AA 0.004203 AA 1413.005127 711.790222
SNP_A-1997922 AA 0.002214 AA 879.994446 336.309662
SNP_A-2000230 AA 0.009790 AA 2144.298096 1651.425049
SNP_A-2000332 AB 0.005832 AB 2455.960449 2285.628418
SNP_A-2000337 AA 0.007824 AA 1118.059814 459.946442
SNP_A-2000342 AA 0.010433 AA 3341.657471 1281.699707
SNP_A-4268173 AB 0.000728 AB 1022.062012 846.386353

Total number of rows: 909622

Table truncated, full table size 46138 Kbytes.




Supplementary file Size Download File type/resource
GSM1636634_4223R_GenomeWideSNP_6_.CEL.gz 29.2 Mb (ftp)(http) CEL
GSM1636634_4223R_GenomeWideSNP_6_.birdseed-v2.chp.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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