|
| Status |
Public on Sep 26, 2016 |
| Title |
lnc-RTN4R-LNA1-rep3 |
| Sample type |
SRA |
| |
|
| Source name |
REH cell line
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: REH
treatment: lnc-RTN4R-1 LNA GapmeR1
time: 72h
|
| Treatment protocol |
Cells were seeded at 1*10^6 cells/ml and treated with either medium or 10 µM LNA GapmeRs. Cells were harvested 72h after treatment.
|
| Growth protocol |
Cells were grown in RPMI supplemented with 20% fetal bovine serum, 1% glutamin and 1% penicilin/streptomycin
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was harvested with the miRNeasy mini kit (Qiagen) with Dnase treatment on-column.
totalRNA, ribodepletion, stranded RNA-seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Aligned with STAR2.4.2a to hg38, using Ensembl38v81 as guide
Genome_build: hg38
Supplementary_files_format_and_content: STAR count output
|
| |
|
| Submission date |
Apr 04, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Farzaneh Ghazavi |
| E-mail(s) |
farzaneh.ghazavi@ugent.be
|
| Organization name |
Gent university hospital
|
| Department |
Center of medical genetics
|
| Street address |
De Pintelaan 185
|
| City |
Ghent |
| ZIP/Postal code |
9000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE79872 |
RNA-sequencing of B-ALL cell lines, REH treated with LNA GapmeRs against four lncRNAs |
| GSE79873 |
Unique long non-coding RNA expression signature in ETV6/RUNX1-driven B-cell precursor acute lymphoblastic leukemia |
|
| Relations |
| BioSample |
SAMN04605075 |
| SRA |
SRX1677230 |
