|
| Status |
Public on Dec 01, 2018 |
| Title |
STAT-upd-rep2 |
| Sample type |
SRA |
| |
|
| Source name |
S2R+ cell line with STAT492E knocked out using CRISPR
|
| Organism |
Drosophila melanogaster |
| Characteristics |
genotype/variation: STAT92E mutant
treatment: upd ligand treated
cell line: STAT492E
|
| Treatment protocol |
upd or control media was added for 1 hour
|
| Growth protocol |
Cells were treated with upd or control media for 1 hour before RNA extraction
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using Trizol reagent
RNA-seq library preparation was performed on total RNA by poly-A selection using the Wafergen PrepX RNA-Seq Library Kit for Illumina and the Apollo 343 NGS Library Prep System (Wafergen)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
STAT92E mutant cells
|
| Data processing |
Sequenced reads were trimmed with Trimmomatic version 0.36, mapped to Drosophila genome (dmel_r6.24) with STAR version 2.5.2b.
Gene counts were normalized by the gene length of the longest isoform annotated at dmel_r6.24 into RPKM.
Genome_build: dm6.24
|
| |
|
| Submission date |
Nov 30, 2018 |
| Last update date |
Dec 03, 2018 |
| Contact name |
Yanhui Hu |
| E-mail(s) |
[email protected]
|
| Phone |
617-432-6546
|
| Organization name |
Harvard Medical School
|
| Department |
Genetics
|
| Lab |
Norbert Perrimon
|
| Street address |
77 Avenue Louis Pasteur
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL19132 |
| Series (1) |
| GSE123167 |
Targets of JAK STAT signaling in Drosophila cells |
|
| Relations |
| BioSample |
SAMN10504979 |
| SRA |
SRX5084354 |
