|
| Status |
Public on Jan 13, 2024 |
| Title |
unkIs7_K12wt_2 |
| Sample type |
SRA |
| |
|
| Source name |
whole worm
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
tissue: whole worm
genotype: UM10 unkIs7[aex-3p::[alpha]-syn(A53T), dat-1p::gfp]
treatment: Fed with K12 WT bacteria
|
| Growth protocol |
The animals were bleached to obtain eggs, which were hatched in M9 overnight. The next day, L1s were seeded onto NGM plates with K12 WT bacteria and grown until L4 stage before being harvested.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The L4 animals were washed with water and the worm pellet was extracted using TRIzol reagent (Invitrogen). The library was constructed by BGI using the standard DNBSEQ Eukaryotic Strand-specific Transcriptome Resequencing service (P_Stranded Library & PE100 Seq).
The library was constructed by BGI using the standard DNBSEQ Eukaryotic Strand-specific Transcriptome Resequencing service (P_Stranded Library & PE100 Seq).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Data processing |
The trimmed sequencing reads were mapped to C. elegans reference genome (WB235) using STAR (2.7.10) with the option --quantMode geneCounts. The counts were then normalized and the differentially expressed genes were then identified using the standard pipeline of DESeq2 in R.
Assembly: WB235
Supplementary files format and content: tab-delimited text files contain the read count generated by STAR
|
| |
|
| Submission date |
Jan 12, 2024 |
| Last update date |
Jan 16, 2024 |
| Contact name |
Chaogu Zheng |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Hong Kong
|
| Department |
School of Biological Science
|
| Street address |
The University of Hong Kong, Pokfulam Road
|
| City |
HK |
| ZIP/Postal code |
00000 |
| Country |
Hong Kong |
| |
|
| Platform ID |
GPL25145 |
| Series (1) |
| GSE230786 |
Metabolic rescue of α-synuclein-induced neurodegeneration through propionate supplementation and intestine-neuron signaling in C. elegans |
|
| Relations |
| BioSample |
SAMN39422824 |
| SRA |
SRX23203156 |
