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Sample GSM638659 Query DataSets for GSM638659
Status Public on Feb 15, 2011
Title WA09P39POLY_87_139_1_1
Sample type genomic
 
Source name Undifferentiated hESC
Organism Homo sapiens
Characteristics cell type: HESC
passage number: 39
Extracted molecule genomic DNA
Extraction protocol Qiagen DNeasy Blood and Tissue Kit
Label C-Bio and A-DNP
Label protocol standard Illumina protocol
 
Hybridization protocol standard Illumina protocol
Scan protocol Scanned on a BeadArray Reader (Illumina) using standard Illumina Protocol.
Description Genomic DNA extracted was genotyped using HumanOmni1-Quad BeadChip Genotyping BeadChips (Illumina).
Data processing We have used the Illumina Genome Studio software version 2010.2 to generate the SNP calls.
 
Submission date Dec 11, 2010
Last update date Feb 15, 2011
Contact name GULSAH ALTUN
E-mail(s) [email protected]
Phone (858) 784 7753
Fax (858) 784 7211
Organization name THE SCRIPPS RESEARCH INSTITUTE
Street address 3030 Science Park Rd. 3rd floor, room 3020
City SAN DIEGO
State/province CA
ZIP/Postal code 92037
Country USA
 
Platform ID GPL8882
Series (1)
GSE25925 Dynamic Changes in the Copy Number of Pluripotency and Cell Proliferation Genes in Human ES and iPS Cells during Reprogramming and Time in Culture

Data table header descriptions
ID_REF
VALUE SNP calls
WA09P39POLY_87_139_1_1.Score
WA09P39POLY_87_139_1_1.Theta
WA09P39POLY_87_139_1_1.R
WA09P39POLY_87_139_1_1.B Allele Freq
WA09P39POLY_87_139_1_1.Log R Ratio

Data table
ID_REF VALUE WA09P39POLY_87_139_1_1.Score WA09P39POLY_87_139_1_1.Theta WA09P39POLY_87_139_1_1.R WA09P39POLY_87_139_1_1.B Allele Freq WA09P39POLY_87_139_1_1.Log R Ratio
200006 AA 0.8273118 0.03724438 1.949369 0.002511858 -0.06636733
200052 BB 0.9487 1 0.919818 1 -0.0627529
200053 AA 0.6364498 0.1348525 1.517819 0.07185249 -0.103026
200070 AB 0.9347444 0.5960214 0.712447 0.5087076 -0.03465447
200078 BB 0.6884917 0.9572573 1.819652 0.9818326 -0.1146719
200087 AA 0.8084779 0.0886376 0.9573912 0.03379677 -0.3377377
200096 AB 0.9041256 0.5107446 1.440897 0.5481223 -0.07793921
200124 BB 0.877098 0.9864782 1.03412 1 -0.02692068
200199 BB 0.9437442 0.9924645 0.7782441 1 -0.2491347
400630 AA 0.8781115 0.00 0.6096829 0.00 -0.2182115
401327 AA 0.8785409 0.0394317 0.8612958 0.00 0.01354997
401753 AA 0.630483 0.08775416 1.248425 0.00 -0.1036088
500301 BB 0.9310601 0.9908569 1.190806 1 0.05383625
500556 BB 0.8736695 0.986754 1.090008 1 -0.03123874
500660 AA 0.5118521 0.02207157 1.130253 0.00 0.0501886
500694 BB 0.715772 0.9671578 1.007953 0.9975203 0.06936077
500710 AA 0.7286785 0.01571154 1.163305 0.00 -0.2023088
ABO_SNP1 BB 0.3991952 0.9652467 1.681079 0.9881479 0.06196838
DI_SNP1 BB 0.5118521 0.9779094 1.017383 1 -0.0636746
FY_SNP2 BB 0.4958491 0.9754829 0.9640324 1 0.09253989

Total number of rows: 1048713

Table truncated, full table size 61125 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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