|
| Status |
Public on Apr 16, 2024 |
| Title |
pash-1(ram33), 25C, rep 4 |
| Sample type |
SRA |
| |
|
| Source name |
gravid hermaphroditic adult whole animals
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
tissue: gravid hermaphroditic adult whole animals
genotype: TAM93[pash-1(ram33) I]
temperature: 25C
|
| Growth protocol |
Worms were grown from synchronized L1 larvae for 72 hours at 20˚C or 54 hours at 25˚C on NGM containing E. coli (OP50).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Worms were washed from plates and rinsed with M9 3 times and flash frozed in liquid nitrogen. RNA was isolated using trizol/chloroform and isopropanol precipitation.
Libraries were then prepared from total RNA according to the NEBNext® Multiplex Small RNA kit protocol. PCR products (~134-148 bp) were size selected using 10% polyacrylamide gels.
small RNA-seq
|
| |
|
| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
wt_pash-1_25C_rpm_normalized_counts.csv
|
| Data processing |
Data processing was done using the default configuration in the tinyRNA pipeline (https://github.com/MontgomeryLab/tinyRNA)
Assembly: WS279
Supplementary files format and content: wt_pash-1_20C_rpm_normalized_counts.csv: CSV formatted file containing reads per million total mapped reads for each feature in wild type and pahsh-1 mutants grown at 20˚C.
Supplementary files format and content: wt_pash-1_25C_rpm_normalized_counts.csv: CSV formatted file containing reads per million total mapped reads for each feature in wild type and pahsh-1 mutants grown at 25˚C.
|
| |
|
| Submission date |
Apr 13, 2024 |
| Last update date |
Apr 16, 2024 |
| Contact name |
Taiowa A Montgomery |
| E-mail(s) |
tai.montgomery@colostate.edu
|
| Organization name |
Colorado State University
|
| Department |
Department of Biology
|
| Street address |
1878 Campus Delivery
|
| City |
Fort Collins |
| State/province |
CO |
| ZIP/Postal code |
80523 |
| Country |
USA |
| |
|
| Platform ID |
GPL25147 |
| Series (1) |
| GSE263914 |
Regulation of Microprocessor assembly and localization via Pasha’s WW domain in C. elegans |
|
| Relations |
| BioSample |
SAMN40951207 |
| SRA |
SRX24242287 |
