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Sample GSM1163066 Query DataSets for GSM1163066
Status Public on Jun 15, 2013
Title B637_HEPG2_SCR
Sample type RNA
Source name HepG2 cell lines
Organism Homo sapiens
Characteristics cell line: HepG2
transfected with: scrambled siRNA (control)
genotype/variation: control
Treatment protocol HepG2 and K562 cell lines were stably transfected with plasmids containing siRNA designed to specifically knock down ADAR expression (ADAR KD). Different types of siRNA were tested, and the one yielding the best ADAR reduction was chosen. The same cells transected with a plasmid containing the scrambled siRNA (SCR) were used as a control.
Growth protocol HepG2 cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM) (Beit-Haemek, Israel)). K562 cells were cultured in RPMI 1640 medium (Beit-Haemek, Israel). Both media were supplemented with 10% fetal calf serum (FCS) (Beit-Haemek, Israel), 2 mM glutamine, 100 mg/ml streptomycin and 100 units/ml penicillin (Beit-Haemek, Israel), at 370c in a humidified incubator with 5% CO2.
Extracted molecule total RNA
Extraction protocol RNA was purified using TRIzol.
Label biotin
Label protocol Affymetrix biotin labeling_ wt kit (Affymetrix)
Hybridization protocol Affymetrix wt labeling protocol as described in
Scan protocol Affymetrix wt scanning protocol as described in
Description B637_HEPG2_SCR_LIN
Data processing RMA
probe group file: HuEx-1_0-st-v2.r2.pgf
meta-probeset file: HuEx-1_0-st-v2.r2.dt1.hg18.core.mps
Submission date Jun 14, 2013
Last update date Oct 25, 2022
Contact name jasmine Jacob
Phone 0523790500
Organization name Sheba Medical Center at Tel HaShomer
Street address haChevel 33
City Shoham
State/province -Select-
ZIP/Postal code 60850
Country Israel
Platform ID GPL5175
Series (2)
GSE47945 Global regulation of alternative splicing by adenosine deaminase acting on RNA (ADAR) [expression]
GSE47998 Global regulation of alternative splicing by adenosine deaminase acting on RNA (ADAR)

Data table header descriptions

Data table
3881686 231.521
2672712 135.538
2842570 280.985
3526544 108.637
2902531 17.9842
2402942 42.5006
3382216 128.228
3771800 912.449
2427469 84.066
2392945 30.4836
2453006 19.8209
2562821 154.042
3416651 11.2657
3552083 21.7581
3721851 254.662
2477438 16.6931
2926969 90.3642
3026969 52.9794
3442176 136.288
3796335 111.362

Total number of rows: 17881

Table truncated, full table size 277 Kbytes.

Supplementary file Size Download File type/resource
GSM1163066_B637_HEPG2_SCR_HuEx-1_0-st-v1_.CEL.gz 20.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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