|
| Status |
Public on Sep 13, 2024 |
| Title |
W303a coq10Δ, replicate 2, nanopore |
| Sample type |
SRA |
| |
|
| Source name |
W303a coq10{delta}
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
cell line: W303a coq10{delta}
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were extracted from frozen cell pellets using hot phenol-chloroform extraction followed by ethanol precipitation.
RNA libraries were prepared from 500 ng of total RNAs using the PCR-cDNA barcoding kit from Oxford Nanopore (ONT, catalog #: SQK-PCB114.24) as per the manufacturer's instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
MinION |
| |
|
| Description |
Nanopore PCR-cDNA (SQK-PCB114.24)
|
| Data processing |
Basecalling was performed using the built in Dorado basecaller in Minknow (Dorado version: 7.4.12).
Reads were then mapped to S288C reference genome using Minimap 2 (Version 2.17-r941).
Read counts were generated by featureCounts and normalized using DESeq2
Assembly: R64-1-1
Supplementary files format and content: comma-separated text file includes the raw counts for each sample
|
| |
|
| Submission date |
Sep 08, 2024 |
| Last update date |
Sep 13, 2024 |
| Contact name |
Guillaume Chanfreau |
| E-mail(s) |
guillom@chem.ucla.edu
|
| Organization name |
University of California, Los Angeles
|
| Street address |
607 Charles E Young Dr E
|
| City |
Los Angeles |
| State/province |
California |
| ZIP/Postal code |
90024 |
| Country |
USA |
| |
|
| Platform ID |
GPL25739 |
| Series (1) |
| GSE276665 |
Nonfunctional coq10 mutants maintain the ERMES complex and reveal true phenotypes associated with the loss of the coenzyme Q chaperone protein Coq10 |
|
| Relations |
| BioSample |
SAMN43539212 |
| SRA |
SRX26016955 |
