|
| Status |
Public on Feb 06, 2013 |
| Title |
JQ1_4h_RNAseq |
| Sample type |
SRA |
| |
|
| Source name |
S2-DRSC cells, JQ1, 4h
|
| Organism |
Drosophila melanogaster |
| Characteristics |
cell line: S2-DRSC
treatment: JQ1
treatment duration: 4 hrs
|
| Treatment protocol |
Cells were treated either with JQ1 or DMSO by adding the compound to the growth medium for the indicated time periods.
|
| Growth protocol |
S2-DRSC cells were grown in Schneider's medium incl. 10% FCS.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using standard Trizol protocols for adherent cells. 4 microg of total RNA served as the starting material to construct the libraries using the TruSeq RNA Sample Prep Kit (Illumina) according to the manufacturer's instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
BSSE-DSU-1738
|
| Data processing |
Reads were aligned to the Drosophila genome release BDGP5 using the splice junction aware aligner TopHat (http://tophat.cbcb.umd.edu/) and standard parameters. Reads uniquely mapping to Drosophila gene sets (Ensembl release 64) were counted using the htseq-count script (http://www-huber.embl.de/users/anders/HTSeq/doc/count.html#count). Gene sets in GTF format were obtained from http://www.ensembl.org/info/data/ftp/index.html.
Genome Build:
1738.counts: BDGP5
|
| |
|
| Submission date |
Feb 29, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Tobias Kockmann |
| E-mail(s) |
[email protected]
|
| Organization name |
ETHZ
|
| Department |
D-BSSE
|
| Lab |
Paro
|
| Street address |
Mattenstr. 26
|
| City |
Basel |
| ZIP/Postal code |
4058 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL13304 |
| Series (2) |
| GSE36180 |
Effects of pharmacologic FSH inhibition on gene expression |
| GSE36450 |
The BET protein FSH functionally interacts with ASH1 to orchestrate global gene activity in Drosophila |
|
| Relations |
| Reanalyzed by |
GSM3276693 |
| SRA |
SRX124542 |
| BioSample |
SAMN00793127 |
