|
| Status |
Public on Aug 03, 2022 |
| Title |
Fat body; Efae High Dose-d1; Biol rep 1 |
| Sample type |
SRA |
| |
|
| Source name |
fat body
|
| Organism |
Drosophila melanogaster |
| Characteristics |
tissue: fat body
genotype: Oregon-R
treatment: Efae High Dose
time: d1
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA from either fat bodies or hemocytes was extracted using a Zymo Direct-zol RNA Extraction kit and eluted in 20uL water.
Libraries were prepared using a modified version of the Illumina Smart-seq 2 protocol as previously described (Ramirez-Corona 2021). Libraries were sequenced on an Illumina Next-seq platform using a NextSeq 500/550 504 High Output v2.5 kit to obtain 43bp paired-end libraries.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Sequenced libraries were quality checked using FastQC and aligned to Drosophila reference genome dm6 using Bowtie 2
Counts were generated using the subread function featureCounts.
Counts were then loaded into EdgeR, libraries were TMM normalized, and genes with CPM < 1 were filtered out.
Assembly: dm6
Supplementary files format and content: tab-delimited file containing raw counts for each sample
|
| |
|
| Submission date |
Aug 01, 2022 |
| Last update date |
Aug 03, 2022 |
| Contact name |
Kevin Cabrera |
| E-mail(s) |
[email protected]
|
| Organization name |
Boston University
|
| Street address |
610 Commonwealth Avenue
|
| City |
Boston |
| State/province |
Massachusetts |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL19132 |
| Series (1) |
| GSE210282 |
Drosophila immune priming to Enterococcus faecalis relies on immune tolerance rather than resistance |
|
| Relations |
| BioSample |
SAMN30089286 |
| SRA |
SRX16766423 |
