|
| Status |
Public on Nov 25, 2017 |
| Title |
upf1-del-rpb1-del-plasm-LEU2-RPB1-CKY690-rep1 |
| Sample type |
SRA |
| |
|
| Source name |
upf1-del-rpb1-del-plasm-LEU2-RPB1-CKY690
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
genotype/variation: upf1-del-rpb1-del-plasm-LEU2-RPB1-CKY690
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For total RNA, log phase cells were pelleted and lysed in a beadbeater (Biospec Products) with Zirconia beads (Thistle Scientific) and phenol, then extracted with phenol:chloroform and precipitated with ethanol.
Directional RNA Library Prep
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
Total RNA (rRNA depleted)
|
| Data processing |
Splice junctions were generated with STAR
Read counts were generated with DICEseq
Genome_build: SacCer3
Supplementary_files_format_and_content: tab-delimited text files include read counts and FPKM values for each sample
|
| |
|
| Submission date |
May 22, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Vahid Aslanzadeh |
| Organization name |
University of Edinburgh
|
| Department |
Wellcome Trust Centre for Cell Biology
|
| Street address |
Mayfield Road
|
| City |
Edinburgh |
| ZIP/Postal code |
EH9 3BF |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL21656 |
| Series (1) |
| GSE99161 |
Transcription Rate Strongly Affects Splicing Fidelity and Co-transcriptionality in Budding Yeast |
|
| Relations |
| BioSample |
SAMN07151932 |
| SRA |
SRX2840828 |
