|
| Status |
Public on Nov 18, 2022 |
| Title |
Non-pupating larvae 5 days 1 |
| Sample type |
SRA |
| |
|
| Source name |
eye-antennal imaginal discs
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: eye-antennal imaginal discs
genotype: y w; +/+; +/+
medium: pupation-preventing food
time point: 5 days after egg laying
group: actively growth
|
| Treatment protocol |
The YPH erg2∆::TRP1 yeast strain unable to produce the hormone precursors necessary for the onset of pupation in Drosophila was cultured for 48h at 30°C, centrifuged at 4°C, 1500g for 3min, and the pellet was washed with PBS 3 times as described {Katsuyama, 2013}. The resulting yeast paste was stored at -20°C. For medium preparation, the yeast paste was boiled for 30 minutes and mixed with 10% sucrose, 1.5% agar solution and sterile water in the proportions 10:1:8:20. Nipagin and penicillin were added to prevent fungal and bacterial growth. Adult flies were left overnight to lay eggs, the medium was incubated at 25°C and the larvae were dissected on the day specified.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Drosophila imaginal discs were dissected and transferred into RNAse-free 1xPBS on ice; a minimum of 30 discs per sample were used.
RNA was extracted immediately using the RNAeasy mini spin kit (Qiagen) and stored at -80°C.
Library preparation was performed according to the QuantSeq 3’ mRNA-Seq Library Prep kit FWD (Lexogen).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Quality control and trimming of the sequencing reads was performed using FastQC and Cutadapt (-q 15 --minmum-length 60)
Trimmed sequence reads were mapped to dm6 using STAR v2.6.1d (with default mapping parameters).
Reads were counted with STAR --quantMode GeneCounts
Assembly: dm6
Supplementary files format and content: Tab-delimited text file with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Aug 17, 2022 |
| Last update date |
Nov 18, 2022 |
| Contact name |
Georg Halder |
| E-mail(s) |
georg.halder@kuleuven.be
|
| Organization name |
VIB-KU Leuven
|
| Department |
VIB-KU Leuven Center for Cancer Biology
|
| Lab |
Laboratory of Growth Control
|
| Street address |
Herestraat 49
|
| City |
Leuven |
| ZIP/Postal code |
3000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL25244 |
| Series (2) |
| GSE211457 |
Hippo signaling instructs ectopic but not normal organ growth [Drosophila NonPupatingLarvae] |
| GSE211461 |
Hippo signaling instructs ectopic but not normal organ growth |
|
| Relations |
| BioSample |
SAMN30370743 |
| SRA |
SRX17116487 |
