|
| Status |
Public on Jan 13, 2024 |
| Title |
WT-clone_2-utr2-R1 |
| Sample type |
SRA |
| |
|
| Source name |
HEK-RAF-ER
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK-RAF-ER
genotype: WT
clone: clone 2
treatment: none
time: utr2
replicate: R1
|
| Treatment protocol |
Cells were treated with tamoxifen (4OHT) to activate RAF activity
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted using Qiagen RNAeasy kit following manufacturers recommendation, without removal of DNA
Library was constructed using QuantSeq 3’ mRNA-Seq V2 Library Prep Kit V2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
poly-A sequences and adapters are trimmed with bbduk
Sequences are aligned using STAR aligner
Assembly: GRCh38
Supplementary files format and content: counts of reads per Gene
|
| |
|
| Submission date |
Dec 19, 2023 |
| Last update date |
Jan 13, 2024 |
| Contact name |
Nils Blüthgen |
| E-mail(s) |
nils.bluethgen@charite.de
|
| Organization name |
Charite Universitätsmedizin Berlin
|
| Department |
Institute of Pathology
|
| Street address |
Chariteplatz 1
|
| City |
Berlin |
| ZIP/Postal code |
10117 |
| Country |
Germany |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE250532 |
Effects of kockouts of EGR1, FOS and their combination on the MAPK induced transcriptome [RNA_KO_clones] |
| GSE250559 |
MAPK |
|
| Relations |
| BioSample |
SAMN38932518 |
| SRA |
SRX22970356 |
