|
| Status |
Public on Jan 08, 2024 |
| Title |
SAFB1, SAFB2 and SLTM siRNA treated HEK293 cells |
| Sample type |
SRA |
| |
|
| Source name |
HEK293
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293
sirna: SAFB1, SAFB2 and SLTM siRNA
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Polyadenylated RNA was directly isolated isolated using Dynabeads mRNA DIRECT purification kit (Thermo Fisher Scientific).
700 ng of freshly isolated polyA enriched mRNA were processed with Direct RNA Sequencing Kit (SQK-RNA002) from Oxford Nanopore according to the manufacturer’s protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
PromethION |
| |
|
| Data processing |
Base-calling with guppy
Read alignment and downstream prcessing was carried out with FLAIR using directRNA specific options
Assembly: hg38
Supplementary files format and content: Three-column tab-delimited text file with gene identifier and raw read count columns
|
| |
|
| Submission date |
Oct 05, 2023 |
| Last update date |
Jan 08, 2024 |
| Contact name |
IBRAHIM AVSAR ILIK |
| E-mail(s) |
[email protected]
|
| Organization name |
Max-Planck-Institut für molekulare Genetik
|
| Lab |
OWL Aktas
|
| Street address |
Ihnestraße 63-73
|
| City |
Berlin |
| State/province |
Berlin |
| ZIP/Postal code |
14195 |
| Country |
Germany |
| |
|
| Platform ID |
GPL26167 |
| Series (2) |
| GSE223263 |
Autonomous transposons tune their sequences to ensure somatic suppression. |
| GSE244701 |
Autonomous transposons tune their sequences to ensure somatic suppression [directRNA_HEK293] |
|
| Relations |
| BioSample |
SAMN37692288 |
| SRA |
SRX21996740 |
