|
| Status |
Public on Nov 09, 2023 |
| Title |
yeast, control group, biol rep 1 |
| Sample type |
SRA |
| |
|
| Source name |
yeast cell
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
cell type: yeast cell
strain: S288C
genotype: WT
treatment: YPD at 30℃
|
| Growth protocol |
The yeast strains were cultivated in YPD complete medium containing 2% glucose, 2% peptone, 1% yeast extract
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested following the Microbial RNA BGI-NGS-TQ-RNA-002 protocol of Beijing Genomics institution
RNA libriaries for RNA-seq were prepared following the BGI-NGS-JK-RNA-001 protocol of Beijing Genomics institution
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Description |
WT4741-1
WT4741 gene expression.txt
|
| Data processing |
SOAPnuke v1.5.6
Sequence reads for adaptor sequence/low-quality sequence/unknown base ('N' base) using SOAPnuke software. Low-Quality limit (base quality less than or equal to 15):20%, unknown base limit: 5%.
Clean sequence reads analysis and data mining were performed on Dr. Tom Multi-omics Data mining system (https://biosys.bgi.com)
The clean data were aligned to the reference genome using HISAT2 (v2.1.0) and aligned to the gene set using Bowtie2.
Expression level of gene was calculated by RSEM (v1.3.1). The differential expression analysis was performed using the DESeq2(v1.4.5) with Q value ≤ 0.05.
Assembly: R64
Supplementary files format and content: tab-delimited text file includes FPKM values for each sample
|
| |
|
| Submission date |
Nov 06, 2023 |
| Last update date |
Nov 09, 2023 |
| Contact name |
Yan Pan |
| E-mail(s) |
yanpan@zohomail.com
|
| Phone |
8613386384772
|
| Organization name |
University of Electronic Science and Technology of China
|
| Street address |
Northern Jianshe Road
|
| City |
Cheng Du |
| ZIP/Postal code |
611730 |
| Country |
China |
| |
|
| Platform ID |
GPL25927 |
| Series (1) |
| GSE247135 |
SUL1 deficiency reduces PKA activity to increase replicative lifespan in yeast Saccharomyces cerevisiae |
|
| Relations |
| BioSample |
SAMN38123836 |
| SRA |
SRX22386346 |
