|
| Status |
Public on Nov 24, 2023 |
| Title |
SCD -AID_POP2/CCR4_replicate1_t45 |
| Sample type |
SRA |
| |
|
| Source name |
BY4741
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
cell line: BY4741
cell type: Yeast cells
time after_chase: 45 min
genotype: LMA5601
biological replicate: replicate 1
treatment: plus Ethanol
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Yeast cells were lysed and RNA was extracted using Phenol-Chlorform
Quantseq
3’mRNA-Seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 2000 |
| |
|
| Data processing |
The SLAM-DUNK software was used for reads alignment, filtration, calling SNP, and calculating the relevant statistics of SLAMSeq reads for each given 3’ UTR.
Assembly: The FASTA file of the Yeast Genome was downloaded from the Saccharomyces Genome Database "SGD"
Supplementary files format and content: A tab-separated tcount file per sample containing the SLAMSeq statistics
|
| |
|
| Submission date |
Nov 15, 2023 |
| Last update date |
Nov 24, 2023 |
| Contact name |
Mostafa Zedan |
| E-mail(s) |
[email protected]
|
| Organization name |
ETH-Zurich
|
| Street address |
Otto-Stern-Weg 3
|
| City |
Zürich |
| ZIP/Postal code |
8093 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL31112 |
| Series (1) |
| GSE247954 |
SLAM-seq estimates of mRNA half-life changes in S. cerevisiae strains depleted for Dcp2 and Ccr4/Pop2 |
|
| Relations |
| BioSample |
SAMN38271921 |
| SRA |
SRX22541190 |
