|
| Status |
Public on Feb 15, 2018 |
| Title |
KDM4ARNAi_RNASeq1 |
| Sample type |
SRA |
| |
|
| Source name |
Drosophila S2 cells
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: embryonic
treatment: dKDM4A
cells: S2
|
| Treatment protocol |
5-day dsRNA treatment with DOTAP transfection reagent
|
| Growth protocol |
25ºC in Schneider medium + 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction, oligo-dT purification
standard Illumina TruSeq protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Read filtering by FastX
TopHat alignment of genes to Release 5.25 Drosophila genome assembly
Bowtie alignment to repetitive DNA library
DESeq2 read count analysis
Genome_build: Release 5.25 Drosophila genome assembly
Supplementary_files_format_and_content: described in subheadings
|
| |
|
| Submission date |
May 17, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
serafin colmenares |
| E-mail(s) |
[email protected]
|
| Organization name |
lawrence berkeley national lab
|
| Street address |
1 cyclotron road MS977R180A
|
| City |
berkeley |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
|
| Platform ID |
GPL13304 |
| Series (1) |
| GSE99023 |
RNA-seq of S2 cells after GFP (control), dKDM4A, or HP1a RNAi |
|
| Relations |
| Reanalyzed by |
GSM3283418 |
| BioSample |
SAMN07138515 |
| SRA |
SRX2832002 |
