|
| Status |
Public on Aug 04, 2022 |
| Title |
GI-ME-N_Solv_2 |
| Sample type |
genomic |
| |
|
| Source name |
Neuroblastoma cell line
|
| Organism |
Homo sapiens |
| Characteristics |
gender: female
cell line: GI-ME-N
treatment: Solvent-treated
|
| Treatment protocol |
24h after seeding, adherent cells were treated with solvent (DMSO) or 30 nM panobinostat for 18 h.
|
| Growth protocol |
Cells were grown under standard conditions in a humidified atmosphere at 37°C and 5% CO2.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted and purified from cell samples using Qiagen QIAamp DNA Mini Kit according to standard instructions.
|
| Label |
Cy3, Cy5
|
| Label protocol |
350-500 ng genomic DNA from each sample was bisulfite converted using the EZ-96 DNA Methylation Kit (Zymo Research Corporation, Orange, US) according to the manufacturer recommendations. Each sample was whole genome amplified and enzymatically fragmented following the instructions in the Illumina Infinium HD Assay Methylation Protocol Guide .
|
| |
|
| Hybridization protocol |
Bisulfite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human MethylationEPIC Beadchip using standard Illumina protocol.
|
| Scan protocol |
Microarrays were scanned using the Illumina iScan-Scanner according to Standard Illumina Scanning Protocol.
|
| Description |
Solvent-treated
|
| Data processing |
Illumina files were read and processed using the R package minfi (v. 1.28.4). The arrays were normalized using the quantile algorithm. Probes with detection p.value above 0.1 were discarded.
|
| |
|
| Submission date |
Aug 04, 2020 |
| Last update date |
Jan 06, 2023 |
| Contact name |
January 3rd Weiner |
| E-mail(s) |
january.weiner@gmail.com
|
| Phone |
030450543049
|
| Organization name |
Berlin Institute of Health, Charité Medical University of Berlin
|
| Department |
CUBI
|
| Street address |
Charitéplatz 1
|
| City |
Berlin |
| ZIP/Postal code |
10117 |
| Country |
Germany |
| |
|
| Platform ID |
GPL23976 |
| Series (2) |
| GSE155703 |
HDAC inhibition suppresses telomerase activity in neuroblastoma cells harboring TERT rearrangements [array] |
| GSE155707 |
HDAC inhibition suppresses telomerase activity in neuroblastoma cells harboring TERT rearrangements |
|
