|
| Status |
Public on Nov 24, 2023 |
| Title |
plasma, 15min, bio rep1 |
| Sample type |
SRA |
| |
|
| Source name |
JY450
|
| Organism |
Schizosaccharomyces pombe |
| Characteristics |
strain: JY450
time point: 15min
genotype: wt
treatment: plasma
|
| Treatment protocol |
Cells in the log phase or stationary phase were spotted onto a membrane filter on YE agar medium, and then irradiated.
|
| Growth protocol |
Wild-type S. pombe cells were cultured in YE medium.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with hot phenol.
RNA libraries for RNA-seq were prepared using TruSeq stranded mRNA.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
plasma_count.text
|
| Data processing |
The reads were quality trimmed using sickle (v.1.33), aligned to the S. pombe reference genome (R64-1-1) using HISAT2 (v.2.2.1), and processed using Samtools (v. 1.13) and featureCouts (v.2.0.1).
Assembly: S. pombe reference genome (R64-1-1)
Supplementary files format and content: tab-delimited text files.
Supplementary files format and content: counts
|
| |
|
| Submission date |
Apr 25, 2023 |
| Last update date |
Nov 24, 2023 |
| Contact name |
Akira Yamashita |
| E-mail(s) |
ymst@nibb.ac.jp
|
| Organization name |
National Institute for Basic Biology
|
| Street address |
Nishigonaka 38, Myodaiji
|
| City |
Okazaki |
| State/province |
Aichi |
| ZIP/Postal code |
444-8585 |
| Country |
Japan |
| |
|
| Platform ID |
GPL13988 |
| Series (1) |
| GSE230503 |
Cellular responses toatmospheric-pressure plasma in fission yeast |
|
| Relations |
| BioSample |
SAMN34360604 |
| SRA |
SRX20093629 |
