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Sample GSM1869263 Query DataSets for GSM1869263
Status Public on Dec 19, 2016
Title GNV019_p10
Sample type genomic
 
Source name Glioblastoma_parental
Organism Homo sapiens
Characteristics cell type: cultured glioblastoma
culture/clone_id: GNV019
sample type: parental culture
passage: 10+0
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 0.2749473 0.000925038 2.624484 0 -0.7988178
MitoA10551G AA 0.2507025 0.01636608 2.716017 0 -1.04388
MitoA11252G AA 0.3286266 0.01125763 3.591824 0 -0.6841198
MitoA11468G AA 0.3108609 0.008962191 3.488923 0 -0.8622853
MitoA12309G AA 0.1813197 0.01817111 2.112675 0 -1.228392
MitoA13106G AA 0.34824 0.06332497 1.367576 0.04615413 -0.1970397
MitoA13264G AA 0.2462438 0.03188176 3.909345 0.004173824 -0.78414
MitoA13781G AA 0.2450567 0.04260151 0.2825589 0 -2.172903
MitoA14234G AA 0.3183388 0.008198132 2.178399 0 -0.6033615
MitoA14583G AA 0.329661 0.004134651 1.219269 0 -0.8949811
MitoA15245G AA 0.3166409 0.03038753 1.678134 0 -0.6857974
MitoA15302G BB 0.2616324 0.8748167 2.194778 1 -0.4966359
MitoA15759G AA 0.3176084 0.006954134 3.55366 0 -0.8371714
MitoA15925G AA 0.2904017 0.02234291 2.685006 0 -0.5532796
MitoA16163G BB 0.2527641 0.9427406 2.048033 1 -0.851248
MitoA16164G NC 0 0.8026951 0.2449861 0.8654524 -3.632579
MitoA1738G AA 0.2842733 0.01508198 3.430093 0 -0.8360536
MitoA3349G AA 0.289167 0.03847276 3.873631 0.008598714 -0.8627013
MitoA3481G AA 0.3015448 0.01488568 3.425925 0 -0.6557878
MitoA3721G AA 0.2880953 0.05121296 2.737413 0.02422798 -0.7841459

Total number of rows: 551767

Table truncated, full table size 32560 Kbytes.




Supplementary file Size Download File type/resource
GSM1869263_4079019300_B_Grn.idat.gz 22.7 Mb (ftp)(http) IDAT
GSM1869263_4079019300_B_Red.idat.gz 22.7 Mb (ftp)(http) IDAT
Processed data included within Sample table

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