|
| Status |
Public on Nov 30, 2023 |
| Title |
4_RNA-seq_Δctr9_strain_yeast_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
ctr9Δ/ctr9Δ
|
| Organism |
Candida albicans |
| Characteristics |
genotype: ctr9{delta}/ctr9{delta}
cell type: yeast cells
|
| Treatment protocol |
Hyphae induction was performed using YPD with 10% FBS under 37 ℃.
|
| Growth protocol |
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) 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 |
| |
|
| 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: CASC5314
Supplementary files format and content: bigwig
|
| |
|
| Submission date |
Oct 04, 2023 |
| Last update date |
Nov 30, 2023 |
| Contact name |
Shinae Park |
| E-mail(s) |
enispark@gmail.com
|
| Organization name |
Kangwon National University
|
| Street address |
Kangwondaehak-gil
|
| City |
Chuncheon-si |
| ZIP/Postal code |
KS007 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL19036 |
| Series (1) |
| GSE244665 |
CTR9 affects virulence of Candida albicans by regulating methionine metabolism |
|
| Relations |
| BioSample |
SAMN37686906 |
| SRA |
SRX21992464 |
