|
| Status |
Public on Nov 30, 2023 |
| Title |
HH 3 |
| Sample type |
RNA |
| |
|
| Source name |
HH 3
|
| Organism |
Homo sapiens |
| Characteristics |
treatment: HH
|
| Treatment protocol |
2h synchronization (100nM dexamethasone) then 1µM homoharringtonine or 100nM Rocaglamide A during 4h. Vehicule = 0,1% DMSO
|
| Growth protocol |
DMEM/F12 [D6434] + L-glutamine + P/S + 12,5% SVF
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Nucleospin RNA kit from Macherey Nagel according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated ssDNA were prepared according to the standard Affymetrix protocol from 300ng total RNA (GeneChip® WT PLUS Reagent Kit, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 2,3 microgrammes of ssDNA were hybridized for 16 hr at 45C on Clariom S Human Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using GeneChip Scanner GCS3000.
|
| Data processing |
data were processed using our in-house Galaxy instance with “GIANT” (Galaxy-based interactive tools for Analysis of Transcriptomic data). It consists of modules allowing to perform quality control (QC), Robust Multi-Average method normalization, LIMMA differential analysis using apt-probeset-summarize tool (v.2.10.2). Normalization done on gene level with NetAffx Annotation Release 36.
Clariom_S_Human.r1.pgf
Clariom_S_Human.r1.na36.hg38.transcript.csv
Log2 RMA
|
| |
|
| Submission date |
Jan 11, 2023 |
| Last update date |
Nov 30, 2023 |
| Contact name |
Alexandre Berthier |
| E-mail(s) |
alexandre.berthier@inserm.fr
|
| Phone |
0320974217
|
| Organization name |
Inserm
|
| Street address |
U1011, Bâtiment J&K, Bd du Pr Leclerc
|
| City |
Lille |
| ZIP/Postal code |
59000 |
| Country |
France |
| |
|
| Platform ID |
GPL23159 |
| Series (1) |
| GSE222682 |
Effect of homoharringtonine and Rocaglamide A on synchronized AC16 cells |
|
