|
| Status |
Public on Apr 01, 2024 |
| Title |
Caenorhabditis elegans,20℃, after feeding 5mM tryptophan for 36 hours in L4 period, rep3 |
| Sample type |
SRA |
| |
|
| Source name |
whole body
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
tissue: whole body
age: young adult
cell type: hermaphrodite
genotype: WT
treatment: 5mM tryptophan was fed for 36 hours from the L4 period
|
| Treatment protocol |
At L4 period, the experimental group worms are fed 5 mM tryptophan for 36 h.
|
| Growth protocol |
Synchronize the worms, culture the collected eggs in M9 and incubate to L1 at 20 °C, transfer to NGM plates and feed to the L4 stage.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1ug of total RNA for the construction
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Illumina Casava1.7 software used for base-calling
Sequenced reads were trimmed for adaptor sequence. and masked for low-complexity or low-quality sequence. then mapped to WBcel235 whole genome using bowtie v0.12.2 with parameters
The transcript abundances for each sample was estimated with StringTie（1.3.3）
The FPKM value for gene and transcript level was calculated through a protocol from Chepelev et al., Nucleic Acids Research,2009.
Assembly: C. elegans genome version WBcel235 was used as the reference.
Supplementary files format and content: The txt format file contains the FPKM value of expression gene.
|
| |
|
| Submission date |
Mar 27, 2024 |
| Last update date |
Apr 01, 2024 |
| Contact name |
Shanqing Zheng |
| E-mail(s) |
zhengshanqing@henu.edu.cn
|
| Phone |
+8637122892869
|
| Organization name |
Henan university
|
| Street address |
1 Jinming Avenue North, Longting District, School of Basic Medical Sciences, Henan University
|
| City |
Kaifeng |
| ZIP/Postal code |
475004 |
| Country |
China |
| |
|
| Platform ID |
GPL13657 |
| Series (1) |
| GSE262600 |
RNA-seq analysis of young adult fed 5mM tryptophan and control worms |
|
| Relations |
| BioSample |
SAMN40630722 |
| SRA |
SRX24078247 |
