|
| Status |
Public on Jun 03, 2021 |
| Title |
Neuron Control Day 20 rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Head, elav-GAL4/+
|
| Organism |
Drosophila melanogaster |
| Characteristics |
cell type: Neuron
age: 20
cultured temperature: 29C
genotype: Control
tissue: Head
|
| Treatment protocol |
The neuronal N-terminal, glial N-terminal, and glial FL model Drosophila were raised at 28oC. The neuronal full-length model Drosophila were raised at 29oC. For each genotype at each timepoint, we also collected an equivalent number of control animals (elav-GAL4 or repo-GAL4) that were raised in the same conditions.
|
| Growth protocol |
Drosophila expressing the N-terminal construct and corresponding controls were obtained at 7,9, and 11 days post-eclosion for the neuronal driver, and at 5, 7, and 8 days post-eclosion for the glial driver. Drosophila expressing the full-length construct, samples were obtained at 18, 20, and 22 days post-eclosion for both the neuronal and glial driver.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
At the selected ages, animals were transferred to 1.5ml tubes, flash frozen in liquid nitrogen, vigorously shaken and then sieved to collect 50 heads/genotype/replica (~5mg tissue/replica). Total RNA was extracted using the miRNeasy Mini Kit (Qiagen Cat. # 210074).
Illumina TruSeq Stranded mRNA sample preparation kit (Illumina Cat. #20020595)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
H57777.EW20A_L8.D710
|
| Data processing |
Illumina Casava v.1.8.2 software was used for basecalling
Reads were aligned using Bowtie version 0.12.0
Expression was quantified using RSEM version 1.1.19
Differential expression analysis was performed using DESeq2
Genome_build: dm3
Supplementary_files_format_and_content: Normalized counts by gene from RSEM
|
| |
|
| Submission date |
Sep 01, 2020 |
| Last update date |
Jun 03, 2021 |
| Contact name |
Juan Botas |
| Organization name |
Texas Children's Neurological Research Institute
|
| Street address |
1250 Moursund St.
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL17275 |
| Series (1) |
| GSE157287 |
RNA-sequencing of Drosophila expressing mutant Huntingtin in neurons or glia |
|
| Relations |
| BioSample |
SAMN15960383 |
| SRA |
SRX9053171 |
