|
Status |
Public on Oct 11, 2022 |
Title |
Wildtype-caffeine50mM-2 |
Sample type |
SRA |
|
|
Source name |
BY4741
|
Organism |
Saccharomyces cerevisiae |
Characteristics |
cell line: BY4741 genotype: WT treatment: 51mM Caffeine
|
Treatment protocol |
Cells were untreated or treated with 50 mM caffeine for 1h
|
Growth protocol |
Yeast cell cultures and treatments with caffeine were performed in YEPD (1% yeast extract, 2% peptone, and 2% dextrose) or minimal SD media supplemented with the required amino acids.
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was harvested using Trizol reagent (Invitrogen). 500 ng of total RNA was used for the construction of sequencing libraries. RNA libraries were prepared for sequencing using LEXOGEN Quant-Seq Library Prep Kit (Cat#001.24) standard protocols.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
WT caffeine
|
Data processing |
Illumina Casava1.8 software used for basecalling. Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence(using fastx_trimmer), then mapped to sacCer3 (UCSC) whole genome using Bowtie2 Read count extraction using bedtools. Assembly: sacCer3 Supplementary files format and content: tab-delimited text files include read count values for each Sample
|
|
|
Submission date |
Oct 06, 2022 |
Last update date |
Oct 12, 2022 |
Contact name |
Woo-Hyun Chung |
Organization name |
Duksung Women's University
|
Street address |
Samyangro 144-gil 33, Dobonggu
|
City |
Seoul |
ZIP/Postal code |
01369 |
Country |
South Korea |
|
|
Platform ID |
GPL19756 |
Series (1) |
GSE214902 |
Yap1-mediated Flr1 expression reveals crosstalk between oxidative stress signaling and caffeine resistance in Saccharomyces cerevisiae |
|
Relations |
BioSample |
SAMN31181802 |
SRA |
SRX17812337 |