|
| Status |
Public on Jul 19, 2020 |
| Title |
dve-1 RNAi rep1 |
| Sample type |
SRA |
| |
|
| Source name |
the whole organism
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
strain: glp-4(bn2)
developmental stage: Day1 of adulthood
knockdown: dve-1 RNAi
|
| Treatment protocol |
atp-2 RNAi bacterial culture solution was seeded 30 hours later after worms cultured on the empty vector RNAi, hda-1 RNAi or dve-1 RNAi clones.
|
| Growth protocol |
Synchronized worms were raised on RNAi at 20°C. Synchronized from L1 to Day of adulthood stage
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads were aligned to the C. elegans genome (ce11) using TopHat2 (v2.1.1, --read-mismatches 6 --read-edit-dist 6 --min-anchor 8 --segment-length 26).
Uniquely mapped reads were used for further analysis.
Gene expression level and differentially expressed genes were generated by Cufflinks.
Genome_build: C. elegans genome (ce11)
Supplementary_files_format_and_content: Excel file contains gene FPKM.
|
| |
|
| Submission date |
Nov 26, 2019 |
| Last update date |
Jul 19, 2020 |
| Contact name |
Liwa Shao |
| E-mail(s) |
[email protected]
|
| Organization name |
Peking University
|
| Street address |
No.5 Yiheyuan Road Haidian District
|
| City |
Beijing |
| State/province |
- |
| ZIP/Postal code |
100871 |
| Country |
China |
| |
|
| Platform ID |
GPL18245 |
| Series (1) |
| GSE141041 |
mRNA-seq of worms and the mitochondrial unfolded protein response (UPRmt) |
|
| Relations |
| BioSample |
SAMN13389991 |
| SRA |
SRX7217802 |
