|
| Status |
Public on Dec 01, 2023 |
| Title |
N2 ctrl RNAi rep 1 |
| Sample type |
SRA |
| |
|
| Source name |
Whole worm
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
tissue: Whole worm
developmental stage: Young Adult
strain: N2
genotype: Wildtype
treatment: empty vector RNAi
|
| Growth protocol |
Embryos were hatched on NGM plates seeded with RNAi vectors and allowed to develop 72 hrs
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Worms were collected in Trizol (Invitogen) and purified using TURBO Dnase(Ambion) followed by Rneasy extraction kit (Qiagen)
Poly-A selected mRNA library preparation was done using KAPA HyperPrep stranded library preparation kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
| |
|
| Description |
N2_ctrl_rep1
|
| Data processing |
Reads were aligned to C. elegans reference genome using STAR (v.2.7.10b)
Differential gene expression analysis was performed using Feature counts and DeSeq2
Assembly: C. elegans WS275
Supplementary files format and content: .csv files include DeSeq2 analysis with normalized read counts
|
| |
|
| Submission date |
Oct 04, 2023 |
| Last update date |
Dec 01, 2023 |
| Contact name |
Emily Ann Erdmann |
| E-mail(s) |
emierdma@iu.edu
|
| Organization name |
Indiana University
|
| Department |
Biology
|
| Lab |
Hundley
|
| Street address |
1001 E Third Street
|
| City |
BLOOMINGTON |
| State/province |
IN |
| ZIP/Postal code |
47405 |
| Country |
USA |
| |
|
| Platform ID |
GPL32326 |
| Series (1) |
| GSE244602 |
A high-throughput screen identifies RNA Binding Proteins that affect fertility in C. elegans and reveals a functional relationship between ADR-2 and SQD-1 |
|
| Relations |
| BioSample |
SAMN37674263 |
| SRA |
SRX21986530 |
