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Sample GSM1869268 Query DataSets for GSM1869268
Status Public on Dec 19, 2016
Title GNV019_CL7
Sample type genomic
 
Source name Glioblastoma_subclone
Organism Homo sapiens
Characteristics cell type: cultured glioblastoma
culture/clone_id: GNV019_CL7
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 0.306069 0.001766931 2.86399 0 -0.6728255
MitoA10551G AA 0.2927279 0.009702127 3.261659 0 -0.7797659
MitoA11252G AA 0.3291669 0.008372701 4.76809 0 -0.2754247
MitoA11468G AA 0.3187215 0.004727625 4.745253 0 -0.4250029
MitoA12309G AA 0.22785 0.01007275 2.428463 0 -1.027419
MitoA13106G AA 0.3484128 0.05228741 1.421464 0.03368025 -0.1412832
MitoA13264G AA 0.2567114 0.01883749 4.895217 0 -0.459694
MitoA13781G AA 0.2075965 0.08358584 0.2089321 0.04115982 -2.608421
MitoA14234G AA 0.3183388 0.007919323 3.062447 0 -0.1119451
MitoA14583G AA 0.329661 0.007095703 1.511281 0 -0.5852256
MitoA15245G AA 0.2826972 0.0215542 1.451896 0 -0.8947168
MitoA15302G BB 0.2621855 0.8842057 2.19947 1 -0.4499639
MitoA15759G AA 0.3469829 0.004711359 4.726102 0 -0.4258263
MitoA15925G AA 0.2904017 0.01599247 3.445653 0 -0.1934275
MitoA16163G BB 0.2527641 0.942705 2.265367 1 -0.7058222
MitoA16164G NC 0 0.8105817 0.1918502 0.8739375 -3.969168
MitoA1738G AA 0.3015448 0.008680719 4.090183 0 -0.5821359
MitoA3349G AA 0.2904017 0.03074385 4.983479 0 -0.4992346
MitoA3481G AA 0.3015448 0.01031621 4.255206 0 -0.3430522
MitoA3721G AA 0.2904017 0.03647787 3.776795 0.007363013 -0.3197965

Total number of rows: 551767

Table truncated, full table size 32641 Kbytes.




Supplementary file Size Download File type/resource
GSM1869268_4079019427_B_Grn.idat.gz 22.8 Mb (ftp)(http) IDAT
GSM1869268_4079019427_B_Red.idat.gz 22.8 Mb (ftp)(http) IDAT
Processed data included within Sample table

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