|
| Status |
Public on Jun 11, 2021 |
| Title |
YDJ128_3 |
| Sample type |
SRA |
| |
|
| Source name |
naïve replicate 3
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain background: BY4741
genotype: WT
prion: none
|
| Growth protocol |
Four independent colonies of naïve and [BIG+] cells were grown in 5 mL liquid YPD cultures on a culture roller drum wheel overnight at 30°C. Saturated cultures were diluted 1:1000 in new 5 mL YPD cultures and grown until OD 1.0 (exponentially growing). Cultures were pelleted in table-top centrifuge with swing-bucket rotor at 4300 x g at 4°C for 5 minutes, washing once with ice-cold 1X PBS.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA isolation, poly-A selection with ERCC spike-in controls and sequencing were performed by the Beijing Genomics Institute.
Performed by the Beijing Genomics Institute.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
DNBSEQ-G400 |
| |
|
| Description |
YDJ128_3
|
| Data processing |
Pre-processing performed by Beijing Genomics Institute
Kallisto (Bray et al., 2016) and Sleuth (Pimentel et al., 2017) were used for gene expression analysis.
Genome_build: S. cerevisiae strain S288C reference genome R64-1-1
Supplementary_files_format_and_content: Genes/ORFs (systematic name) are listed in rows, samples listed in columns, values are TPM (Transcirpts Per kilobase Million)
|
| |
|
| Submission date |
Jun 10, 2021 |
| Last update date |
Jun 12, 2021 |
| Contact name |
David M Garcia |
| E-mail(s) |
dmgarcia@uoregon.edu
|
| Phone |
5413465809
|
| Organization name |
University of Oregon, Institute of Molecular Biology
|
| Department |
Biology
|
| Lab |
Garcia
|
| Street address |
1318 Franklin Blvd.,, Room 273 Onyx Bridge
|
| City |
Eugene |
| State/province |
OR |
| ZIP/Postal code |
97403 |
| Country |
USA |
| |
|
| Platform ID |
GPL30266 |
| Series (1) |
| GSE176577 |
A prion accelerates proliferation at the expense of lifespan [samples with spike-in controls] |
|
| Relations |
| BioSample |
SAMN19658753 |
| SRA |
SRX11116164 |
