|
| Status |
Public on Aug 01, 2024 |
| Title |
5_dset1-1 |
| Sample type |
SRA |
| |
|
| Source name |
Yeast cells
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
cell type: Yeast cells
genotype: MAT alpah his3d1 leu2d0 ura3d0 lysd0 set1delta::HIS3
|
| Growth protocol |
Yeast cells are cultured at 10ml YPD(1% Yeast extract, 2% Peptone, 2% Glucose) in 100ml flask (30℃, 230rpm) and harvested at OD600=1.0
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested according to the MN RNA-isolation kit(MN;#7409555.50) standard protocols. NEBNext® Ultra™ Directional RNA Library Prep Kit for Illumina(NEB #E7420S) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
MAT alpah his3d1 leu2d0 ura3d0 lysd0 set1Δ::HIS3
|
| Data processing |
The Illumina Hiseq generates raw images utilizing HCS(HiSeq Control Software v2.2) for system control
Base calling through an integrated primary analysis software called RTA(Real Time Analysis. v1.18)
The BCL(base calls) binary is converted into FASTQ utilizing illumina package bcl2fastq(v1.8.4)
Adapters are not trimmed away from the reads.
bedGraph files were converted to BigWig files and the resulted bw files were averaged by WiggleTools 1.2 (https://github.com/Ensembl/WiggleTools).
Assembly: Saccharomyces cerevisiae S288C genome assembly R64 (sacCer3)
Supplementary files format and content: bigwig
|
| |
|
| Submission date |
Oct 06, 2023 |
| Last update date |
Aug 01, 2024 |
| Contact name |
Shinae Park |
| E-mail(s) |
[email protected]
|
| Organization name |
Kangwon National University
|
| Street address |
Kangwondaehak-gil
|
| City |
Chuncheon-si |
| ZIP/Postal code |
KS007 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL17342 |
| Series (2) |
| GSE244788 |
Leo1 and Set1-mediated H3K4me3 contribute to sterol homeostasis in yeast [RNA-seq] |
| GSE244789 |
Leo1 and Set1-mediated H3K4me3 contribute to sterol homeostasis in yeast |
|
| Relations |
| BioSample |
SAMN37704190 |
| SRA |
SRX22010239 |
