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Status |
Public on Jun 03, 2021 |
Title |
Glia N-terminal mHTT Day 7 rep1 |
Sample type |
SRA |
|
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Source name |
Head, repo-GAL4/+; UAS-HTTNT231Q128/+
|
Organism |
Drosophila melanogaster |
Characteristics |
cell type: Glia age: 7 cultured temperature: 28C genotype: N-terminal mHTT 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.
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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)
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
H57779.RN7A_L3.D702
|
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
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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 |
SAMN15960375 |
SRA |
SRX9053108 |