|
| Status |
Public on Jul 01, 2021 |
| Title |
Gefitinib 1 |
| Sample type |
SRA |
| |
|
| Source name |
NSCLC cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: PC9ER cells (PMID: 29212784)
treatment: Gefitinib 1microM
cell line: NSCLC
|
| Treatment protocol |
Cells were treated for 72 h with DBZ (250 nM) (or DMSO as vehicle), then serum-starved overnight and treated with 1µM gefitinib for the final 6h of incubation.
|
| Growth protocol |
Cells were cultured in RPMI1640 containing 10 % FCS in an atmosphere of humidified 5% CO2 at 37°C and passed twice a week.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA were extracted using the Rneasy kit from qiagen. RNA integrity was checked with the Agilent RNA 6000 nano kit
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
gefi.1
|
| Data processing |
Trimming of first 15bp of each read to eliminate compositional bias
STAR alignment in 2 passes with default parameters against Ensembl human genome GRCh38
Read count extraction with HTSeq-count
Only "protein coding" genome features were kept for subsequent processing
Genome_build: Ensembl GRCh38
Supplementary_files_format_and_content: notch-counts-all.txt
Supplementary_files_format_and_content: normalized-counts-coding.txt
|
| |
|
| Submission date |
Jul 30, 2018 |
| Last update date |
Jul 01, 2021 |
| Contact name |
Jacques Colinge |
| E-mail(s) |
jacques.colinge@inserm.fr
|
| Organization name |
Inserm
|
| Lab |
IRCM
|
| Street address |
208, avenue des Apothicaires
|
| City |
Montpellier |
| ZIP/Postal code |
34000 |
| Country |
France |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE117846 |
Gefitinib treatment in human EGFR-driven-Gefitinib resistant tumoral cell line |
|
| Relations |
| BioSample |
SAMN09738026 |
| SRA |
SRX4483272 |
