|
| Status |
Public on Feb 16, 2018 |
| Title |
ato_t4/t5_RIP_1 L2 |
| Sample type |
SRA |
| |
|
| Source name |
L3 Brains
|
| Organism |
Drosophila melanogaster |
| Characteristics |
developmental stage: L3
tissue: brains
chip antibody: anti-GFP
genotype: ipcGal4, UASRpl10Ab::GFP; ato1
genotype-2: ato loss of function
replicate-id: 1
|
| Treatment protocol |
Flies were keept under normal growing contions and they were not treated before dissection
|
| Growth protocol |
The Drosophila stocks used in this experiment were keept at 25 degrees at standard conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
500 L3 larvae of the desired genotype were dissect to collect 500 Brains. The Brains were deep frozen in liquid nitrogen and then homogenized. A 10% of the brain homogenates was used as input, the rest was immunuprecipated with anti-GFP antibodies to isolate t4/t5 ribosomes. The RNA bound to the ribosome was then purified, sonicated and sequenced.
|
| |
|
| Library strategy |
RIP-Seq |
| Library source |
transcriptomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
featurecounts.tsv
|
| Data processing |
Basecalls performed with BaseSpace FastQ Version: 1.0.0
Raw reads adapter and low quality trimmed using fastq-mcf version 1.04.807
Read mapped to the genome using Tophat 2.0.12
Reads counted using FeatureCounts v1.4.4 (part of the subRead package)
Genome_build: DM3
|
| |
|
| Submission date |
Feb 15, 2018 |
| Last update date |
Feb 16, 2018 |
| Contact name |
Mark Fiers |
| E-mail(s) |
[email protected]
|
| Organization name |
VIB
|
| Department |
Center for Brain and Disease
|
| Street address |
Herestraat 49
|
| City |
Leuven |
| ZIP/Postal code |
3000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL19132 |
| Series (1) |
| GSE110705 |
Translatome of developing drosophila t4/t5 neurons in wildtype versus atonal loss of function genotypes |
|
| Relations |
| BioSample |
SAMN08553993 |
| SRA |
SRX3712775 |
