|
| Status |
Public on Jan 16, 2024 |
| Title |
K-NAA, CT11_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
whole body
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
tissue: whole body
strain: JDW259
developmental stage: adult
genotype: JDW259:wrdSi55[eft-3p:TIR1:F2A:mTagBFP2:tbb-2 3'UTR, I:-5.32] ; nhr-23(kry61(nhr-23::AID*::TEV::3xFLAG))
treatment: K-NAA
time: CT11
|
| Treatment protocol |
Animals were transfered to NGM plates with/without 0.4 mM K-NAA 12h prior to sampling.
|
| Growth protocol |
JDW259 strain were cultivated on NGM plates seeded with NA22 E.coli.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted using TRIzol(ThermoFisher) and RNeasy mini kit(Qiagen)
The library was constructed by BGI(China).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
DNBSEQ-G400 |
| |
|
| Data processing |
TPM for each transcript was quantified using Salmon.
TPM was concatanated by gene.
The circadian periodicity and related parameters were calculated using BioCycle.
Assembly: ce10
Supplementary files format and content: Excel file with TPM values and BioCycle statistics for each gene at each timepoint.
|
| |
|
| Submission date |
Jun 01, 2023 |
| Last update date |
Jan 16, 2024 |
| Contact name |
Shingo Hiroki |
| Organization name |
Tokyo Metropolitan Instituite of Medical Sciences
|
| Lab |
Circadian clock lab
|
| Street address |
2-1-6 Kamikitazawa
|
| City |
Setagaya-ku |
| State/province |
Tokyo |
| ZIP/Postal code |
156-8506 |
| Country |
Japan |
| |
|
| Platform ID |
GPL30091 |
| Series (1) |
| GSE233891 |
Circadian RNA-seq dataset in nhr-23 knockldown strain. |
|
| Relations |
| BioSample |
SAMN35556751 |
| SRA |
SRX20565703 |
