|
| Status |
Public on Feb 19, 2013 |
| Title |
RN2/shRen.713 |
| Sample type |
SRA |
| |
|
| Source name |
RN2/shRen.713
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Acute myeloid leukemia
strain: C57BL/6
cell line: RN2
|
| Treatment protocol |
RN2 cells harboring a Doxyclycline-inducible shRNA (shRen.713/shRNF20.3277/shRNF20.3595) were treated with doxycycline for 4 days and harvested.
|
| Growth protocol |
The Tet-on-competent leukemia cells (RN2) were cultured in RPMI1640 media supplemented with 10%FBS and 1%P/S
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were extracted using Trizol reagent.
"Not so random" primer-based RNA-seq libraries were constructed as described previously (Armour et al. 2009 Nature Methods)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
FastaX-trimmer was used for removing adaptor sequences
The trimmed reads were mapped to mouse genome (mm9) using bowtie
Cufflinks software was used to compare gene expression profiles between shRen.713-treated cells and shRNF20 shRNAs-treated cells
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample.
|
| |
|
| Submission date |
Jan 24, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Shinpei Kawaoka |
| E-mail(s) |
[email protected]
|
| Phone |
631-327-4269
|
| Organization name |
Cold Spring Harbor Laboratory
|
| Street address |
1 Bungtown road
|
| City |
Cold Spring Harbor |
| ZIP/Postal code |
11724 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE43725 |
The histone H2B ubiquitin ligase RNF20 is required for MLL-rearranged leukemia |
|
| Relations |
| SRA |
SRX220266 |
| BioSample |
SAMN01906600 |
