|
| Status |
Public on Nov 20, 2021 |
| Title |
WT2 |
| Sample type |
SRA |
| |
|
| Source name |
Saccharomyces Cerevisiae yeast
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain background: CEN.PK122-alpha
genotype: wt
treatment: low glucose environment
|
| Treatment protocol |
5 time points of YMC samples were collected across three consecutive cycles for both wt and yaf9W89A strains. Samples WT1-WT5 cover one wt YMC cycle. WT6-WT10 and WT11-WT15 are replicates; Samples W89A16-W89A20 cover one yaf9W89A YMC cycle. W89A21-W89A25 and W89A26-W89A30 are replicates.
|
| Growth protocol |
the chemostat protocal was listed in the method section of the manuscript. Both strains grow initially under high nutrient environment with constant O2 supply until they starve. 6 hours after starvation, low glucose media is slowly added into the vessels. The YMC is recored under nutrient-limiting conditions.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
5 ml cells were extracted from the YMC cycles according to their time points
RNA libraries were referred to Graeme et al., 2019
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
wt
|
| Data processing |
Library preparation for transcriptome sequencing
Clustering and sequencing
Data analysis including quality control, mapping to reference genome, novel gene prediction, quantification, differential expression analysis, enrichment analysis, alternative splicing analysis, and mutation analysis.
Genome_build: mm9
Supplementary_files_format_and_content: excel files of all the sample readcounts as well as the comparisons between wt and yaf9W89A samples
|
| |
|
| Submission date |
Nov 18, 2021 |
| Last update date |
Nov 20, 2021 |
| Contact name |
Brian David Strahl |
| E-mail(s) |
[email protected]
|
| Phone |
9198433896
|
| Organization name |
UNC-Chapel Hill
|
| Department |
Biochemistry
|
| Street address |
120 Mason Farm Road 3060 Genetic Medicine
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599 |
| Country |
USA |
| |
|
| Platform ID |
GPL13821 |
| Series (1) |
| GSE189089 |
RNA-sequencing results of five samples across three YMC cycles of both wt and yaf9W89A strains |
|
| Relations |
| BioSample |
SAMN23282477 |
| SRA |
SRX13165854 |
