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Sample GSM1869267 Query DataSets for GSM1869267
Status Public on Dec 19, 2016
Title GNV019_CL6
Sample type genomic
 
Source name Glioblastoma_subclone
Organism Homo sapiens
Characteristics cell type: cultured glioblastoma
culture/clone_id: GNV019_CL6
sample type: subclones derived from a parental culture
passage: 5+5
Treatment protocol No treatment
Growth protocol Conditions for cell expansion
Extracted molecule genomic DNA
Extraction protocol AllPrep DNA/RNA Mini Kit (Qiagen)
Label biotin/dinitrophenyl
Label protocol C-Bio and A-DNP
 
Hybridization protocol Standard Illumina HumanHap chips Quad610, 550 v1,v3 v3duo protocols
Scan protocol Standard Illumina HumanHap chips Quad610, 550 v1,v3 v3duo protocols
Description Genomic DNA extracted from primary glioblastoma cells GNV019 was genotyped using Infinium HumanHap550-v3 Genotyping BeadChips (Illumina).
Data processing Genomic DNA extracted from glioblastoma primary cells were genotyped using Infinium HumanHap550-2v3 and Human610-Quadv1_B Genotyping BeadChips (Illumina). Datasets from both arrays were merged according to Illuminas report Combining and Analyzing Data from Different BeadChips for integrated processing and analysis using GenomeStudio
Sample data table contains Genotype call, GC_SCORE, Theta, R, B_Allele_Freq, Log_R_Ratio exported from GenomeStudio
 
Submission date Sep 04, 2015
Last update date Dec 19, 2016
Contact name Roman Reinartz
E-mail(s) roman.reinartz@uni-bonn.de
Organization name University of Bonn
Department Institute of Reconstructive Neurobiology
Lab Stem Cell Pathologies Group
Street address Sigmund Freud Strasse 25
City Bonn
ZIP/Postal code 53127
Country Germany
 
Platform ID GPL20886
Series (1)
GSE72732 Functional Subclone Profiling for Prediction of Treatment-Induced Intratumor Population Shifts and Discovery of Rational Drug Combinations in Human Glioblastoma [SNP]

Data table header descriptions
ID_REF
VALUE genotype call
GC_SCORE
Theta
R
B_Allele_Freq
Log_R_Ratio

Data table
ID_REF VALUE GC_SCORE Theta R B_Allele_Freq Log_R_Ratio
MitoA10045G AA 0.3197343 0.003088007 3.35024 0 -0.4465873
MitoA10551G AA 0.298474 0.02158315 3.854546 0 -0.5388108
MitoA11252G AA 0.3291669 0.01597951 4.099936 0 -0.4932349
MitoA11468G AA 0.3187215 0.01326816 4.083016 0 -0.6288732
MitoA12309G AA 0.2884996 0.0178735 3.58846 0 -0.4640975
MitoA13106G AA 0.3484128 0.02520128 1.670013 0.003069336 0.09119808
MitoA13264G AA 0.2554665 0.03512323 4.219512 0.007875665 -0.6739905
MitoA13781G AA 0.3359487 0.06713089 0.5296948 0.02171701 -1.266294
MitoA14234G AA 0.3183388 0.01233673 2.559689 0 -0.3706615
MitoA14583G AA 0.329661 0.004628859 1.313603 0 -0.787469
MitoA15245G NC 0 n. def. n. def. n. def. n. def.
MitoA15302G BB 0.2735513 0.8835717 2.606799 1 -0.2078261
MitoA15759G AA 0.3465552 0.01454814 4.091003 0.00336417 -0.6340224
MitoA15925G AA 0.2904017 0.02457742 3.383649 0 -0.2196247
MitoA16163G BB 0.2527641 0.9287518 2.309997 1 -0.7087162
MitoA16164G NC 0 0.8606753 0.2820368 0.9278319 -3.306375
MitoA1738G AA 0.3015448 0.01784239 4.111563 0 -0.5746145
MitoA3349G AA 0.2904017 0.04902071 4.306524 0.02069627 -0.7098638
MitoA3481G AA 0.3015448 0.0210288 4.084554 0 -0.4021025
MitoA3721G AA 0.2904017 0.035292 3.931618 0.006005738 -0.2618357

Total number of rows: 551767

Table truncated, full table size 32543 Kbytes.




Supplementary file Size Download File type/resource
GSM1869267_4079019427_A_Grn.idat.gz 22.7 Mb (ftp)(http) IDAT
GSM1869267_4079019427_A_Red.idat.gz 22.8 Mb (ftp)(http) IDAT
Processed data included within Sample table

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