|
| Status |
Public on Mar 19, 2023 |
| Title |
WT_C_3 |
| Sample type |
SRA |
| |
|
| Source name |
BY4741
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: BY4741
treatment: 0.095% EtOH
biological replicate: 3
|
| Treatment protocol |
Cells were treated with either 0.095% ethanol or 20uM edelfosine for 60 minutes.
|
| Growth protocol |
S cerevisiae cells were grown into log phase at 30C with shaking at 200rpm in synthetic defined medium
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was harvested using using the hot acid phenol protocol. 1ug of total RNA input was used for all libraries.
NEBNext® Poly(A) mRNA Magnetic Isolation Module (E7490) and NEBNext® Ultra™ II RNA Library Prep Kit for Illumina® (E7770, E7775) were used to prepare the libraries according to the manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Poly(A) Enriched mRNA
WT3_C.kallisto
read_counts_matrix.txt
|
| Data processing |
Analysis was performed by the Cumming School of Medicine's Centre for Health Genomics and Informatics, University of Calgary
Reads were mapped to the reference transcriptome using Kallisto.
Statistical analysis was performed in R following http://achri.blogspot.com/2016/10/using-kallisto-sleuth.html
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample
|
| |
|
| Submission date |
Mar 15, 2023 |
| Last update date |
Mar 19, 2023 |
| Contact name |
Vanina Zaremberg |
| E-mail(s) |
vzarembe@ucalgary.ca
|
| Organization name |
University of Calgary
|
| Department |
Biological Sciences
|
| Street address |
2500 University Dr NW
|
| City |
Calgary |
| State/province |
Alberta |
| ZIP/Postal code |
T2N 1N4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL19756 |
| Series (1) |
| GSE227381 |
Effect of the lysphosphatidylcholine analogue edelfosine on gene expression in Saccharomyces cerevisiae |
|
| Relations |
| BioSample |
SAMN33768025 |
| SRA |
SRX19679761 |
