|
| Status |
Public on Apr 28, 2020 |
| Title |
K562_shSCR Translatome biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
shSCR Translatome
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: K562
genotype/variation: lentivirus expressing scramble (SCR) control shRNA
time post induction: 5 days after induction
molecule subtype: RNA extracted from heavy polysomes
|
| Treatment protocol |
A scramble (SCR) control shRNA and RPS14 shRNA (640 and 641) were cloned in pLKO.1 Tet-On vector. Cells were selected with puromycine (1 mg/mL). shRNA expression was induced by doxycycline (0.2 μg/mL) for 3 days
|
| Growth protocol |
The K562 cell line was cultured in αMinimum Essential Medium (αMEM) containing 10% fetal calf serum (FCS), 1mM glutamine, 100UI/mL penicillin-streptomycin
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the Kit QIAamp® RNA Blood MiniKit. RNA from ribosomal fractions was purified using Trizol (Invitrogen).
|
| Label |
biotin
|
| Label protocol |
Briefly, linear amplification of 20 ng of total RNA was performed using the Ovation Biotin RNA Amplification and Labelling System (NuGEN, San Carlos, CA).
|
| |
|
| Hybridization protocol |
cDNA was hybridized to HTA2.0 affymetrix microarrays following standard
|
| Scan protocol |
affymetrix microarrays following standard
|
| Description |
02_SCR-K562_rep2_5_(HTA-2_0)
|
| Data processing |
Raw expression values were normalized using Robust Multiarray Averaging (RMA) and custom brainarray CDFv20 ID= EntrezGene
|
| |
|
| Submission date |
Jan 08, 2019 |
| Last update date |
Apr 28, 2020 |
| Contact name |
Ismael Boussaid |
| E-mail(s) |
boussaid.ismael@gmail.com
|
| Phone |
+33618115659
|
| Organization name |
Inserm
|
| Lab |
Institut Cochin
|
| Street address |
22 Rue Mechain
|
| City |
Paris |
| ZIP/Postal code |
75014 |
| Country |
France |
| |
|
| Platform ID |
GPL24299 |
| Series (2) |
| GSE108822 |
Integrated analyses of translatome and proteome identify the rules of translation selectivity in RPS14-deficient |
| GSE124800 |
Rules governing translation selectivity under limiting ribosome availability |
|
