|
| Status |
Public on Jun 26, 2020 |
| Title |
Mixed S. cerevisiae and S. Bayanus cells |
| Sample type |
SRA |
| |
|
| Source name |
S. cerevisiae and S. bayanus
|
| Organisms |
Saccharomyces bayanus; Saccharomyces cerevisiae |
| Characteristics |
strain: WT
growth period: 18 hrs
|
| Treatment protocol |
Treated with 10 uM DMSO, MPA, Guanine, of Guanine and MPA. Species mixing experiment cells were not treated
|
| Growth protocol |
Cells were grown for 18 hrs in CSM 2% glucose in MPA, Guanine, DMSO, or Guanine+MPA for MPA experiments. Cells were grown in CSM 2% glucose for species mixing S. bayanus and S. cerevisiae
|
| Extracted molecule |
total RNA |
| Extraction protocol |
DropSeq
Nextera XT standard illumina primers
Single cell RNA seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Paired end reads were combined after trimming of adapters on R1 and subjected to fastq quality control and trimming
Cell barcodes were extracted from reads and attached to read name. This was done using the DropSeq alignment protocol
Reads were aligned to S. cerevisiae genome for MPA experiments, or aligned to the cerevisiae and bayanus genomes for the species mixing experiments
Aligned reads had gene and exon information added to produce digital gene expression data
MPA experiment data was integrated and analyzed using the seurat standard integration protocol
Genome_build: S. cerevisiae genome (R64-1-1), or S. bayanus genome (unassembled CBS 7001)
Supplementary_files_format_and_content: .dge files are in txt format and contain digital gene expression data of individual genes per cell
|
| |
|
| Submission date |
Jan 31, 2020 |
| Last update date |
Jul 11, 2020 |
| Contact name |
Guste Urbonaite |
| E-mail(s) |
guste.urbonaite@yale.edu
|
| Phone |
8609384422
|
| Organization name |
Yale University
|
| Department |
Molecular and Cellular Biology
|
| Lab |
Murat Acar
|
| Street address |
300 Heffernan Drive, ISTC, Rm 117
|
| City |
West Haven |
| State/province |
CT |
| ZIP/Postal code |
06115 |
| Country |
USA |
| |
|
| Platform ID |
GPL28108 |
| Series (1) |
| GSE144636 |
A yeast-optimized single-cell transcriptomics platform elucidates how mycophenolic acid and guanine alter global mRNA levels |
|
| Relations |
| BioSample |
SAMN13961655 |
| SRA |
SRX7658099 |
