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Sample GSM1637435 Query DataSets for GSM1637435
Status Public on Feb 01, 2016
Title blood-Control_2635
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 AB 0.015284 AB 4347.982910 4303.784668
SNP_A-1967418 AB 0.010270 AB 712.885925 695.479858
SNP_A-1969580 BB 0.003095 BB 1234.469604 3775.498047
SNP_A-4263484 AA 0.006147 AA 2090.379639 513.545593
SNP_A-1978185 AA 0.005192 AA 1082.833130 450.439850
SNP_A-4264431 AA 0.006944 AA 1774.013550 573.233765
SNP_A-1980898 BB 0.004702 BB 272.108459 860.708008
SNP_A-1983139 AA 0.002902 AA 2707.552246 807.730164
SNP_A-4265735 AB 0.021262 AB 2255.962646 2305.820801
SNP_A-1995832 AA 0.011881 AA 3083.234375 755.865967
SNP_A-1995893 AA 0.006555 AA 2341.965820 1280.186401
SNP_A-1997689 BB 0.004970 BB 1009.048096 3794.930176
SNP_A-1997709 AA 0.004804 AA 2362.816650 382.946808
SNP_A-1997896 AA 0.001631 AA 1232.289551 611.558044
SNP_A-1997922 AA 0.008776 AA 704.206482 348.999481
SNP_A-2000230 AA 0.002361 AA 2115.823730 1368.085327
SNP_A-2000332 AA 0.003213 AA 3868.960693 1092.766357
SNP_A-2000337 AA 0.002911 AA 1518.728271 429.345795
SNP_A-2000342 AA 0.001469 AA 3226.264160 1044.215210
SNP_A-4268173 AB 0.000797 AB 934.191589 850.798767

Total number of rows: 909622

Table truncated, full table size 46138 Kbytes.




Supplementary file Size Download File type/resource
GSM1637435_2635_GenomeWideSNP_6_.CEL.gz 29.0 Mb (ftp)(http) CEL
GSM1637435_2635_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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