|
| Status |
Public on Aug 31, 2020 |
| Title |
NLS-BirA |
| Sample type |
SRA |
| |
|
| Source name |
nocodazole arrested yeast
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
background: A364A
strain: SX173
expression: NLS-BirA
ChIP: streptavidin
|
| Treatment protocol |
Cells were treated with 10 nM biotin for 10 minutes at 30 degree, then fixed with 1% formaldehyde for one hour at room temperature.
|
| Growth protocol |
Cells grown in synthetic complete medium with low biotin and 2% Raffinose, arrested in 1.2 ug/ml nocodazole for 3 hours at 30 degree, and then in synthetic complete medium with low biotin and 2% galactose for one hour.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were bead beated 40s x 2. Chromatin were harvested by centrifuge at 15000 rmp for 10 minutes, sheared on Bioruptor Pico, and clarified by centrifuge again at 15000 rpm for 10 minutes.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
P
|
| Data processing |
ChIP seq reads were aligned to yeast genome by bowtie2.
Trace file were generated using bamCoverage.
Genome_build: S288C (sacCer3)
Supplementary_files_format_and_content: Trace files in bigWig
|
| |
|
| Submission date |
Aug 30, 2020 |
| Last update date |
Aug 31, 2020 |
| Contact name |
Siheng Xiang |
| E-mail(s) |
sx@berkeley.edu
|
| Phone |
4693963129
|
| Organization name |
UC Berkeley
|
| Street address |
1 Barker Hall
|
| City |
Berkeley, CA |
| State/province |
California |
| ZIP/Postal code |
94720 |
| Country |
USA |
| |
|
| Platform ID |
GPL27812 |
| Series (1) |
| GSE157155 |
Chromosome localization of cohesin oligomers in mid-M arrested yeast cells |
|
| Relations |
| BioSample |
SAMN15944705 |
| SRA |
SRX9038694 |
