|
| Status |
Public on Sep 01, 2024 |
| Title |
hypoxic control (0h recovery), mutant, replicate 3 |
| Sample type |
SRA |
| |
|
| Source name |
whole fly
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: whole fly
genotype: het L2HGDH mutant (12/14)
treatment: hypox_recov_0h
replicate: 3
|
| Treatment protocol |
Flies were kept in a hypoxic environment of 1% oxygen for 12 hours before being allowed to recover for 1 or 12 hours in a normoxic environment
|
| Growth protocol |
Flies were maintained at 25°C, 60% humidity, 12h/12h light/dark cycle, on Bloomington food, except during hypoxia treatment
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Flies were homogenized in trizol + ceramic beads
Illumina Stranded mRNA prep, 96 index
Poly-A-selected total RNA prepared with TruSeq ligation for paired-end sequencing
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Data processing |
QC with FastQC and MultiQC
Quantification with salmon
Quantifications imported with tximport
Normalization and transformed log counts with DESeq2
Assembly: BDGP6.32
Supplementary files format and content: salmon quantification directories as gzip'd archives
Supplementary files format and content: supplementary file contained transformed log counts of all samples
|
| |
|
| Submission date |
Aug 24, 2023 |
| Last update date |
Sep 01, 2024 |
| Contact name |
Jason M Tennessen |
| E-mail(s) |
tennessenlab@gmail.com, tennlab@iu.edu, jtenness@iu.edu, tourigny@iu.edu
|
| Phone |
8128559803
|
| Organization name |
Indiana University
|
| Department |
Biology
|
| Lab |
Tennessen
|
| Street address |
1001 E 3rd St
|
| City |
Bloomington |
| State/province |
IN |
| ZIP/Postal code |
47401 |
| Country |
USA |
| |
|
| Platform ID |
GPL22106 |
| Series (1) |
| GSE241662 |
Transcriptomics of impaired hypoxic recovery of L2HGDH mutants |
|
| Relations |
| BioSample |
SAMN37145608 |
| SRA |
SRX21480240 |
