|
| Status |
Public on Apr 17, 2024 |
| Title |
WT, Smt3, ChIP, Replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
W303
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
cell type: W303
antibody: Smt3
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Formaldehyde was added to mid-log phase cells at a final concentration of 1% for 20 min. After quenching and cell lysis, chromatin was sonicated using a VCX130 Ultrasonic processor (Sonics and Materials)
ChIP-seq libraries were prepared using the TruSeq DNA Sample prep kit according to manufacturer's guidelines
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
All FASTA RAW sequences were quality controlled using FastQC v0.11.7
ChIP-seq reads were trimmed using Trimmomatic v0.38
ChIP-seq reads were aligned to the sacCer3 reference genome using Bowtie v1.1.2
Peaks were called using MACS2 v2.1.1.20160309
Assembly: sacCer3
Supplementary files format and content: bigwig
|
| |
|
| Submission date |
Jan 11, 2024 |
| Last update date |
Apr 17, 2024 |
| Contact name |
Hong-Yeoul Ryu |
| E-mail(s) |
lme75514757@gmail.com
|
| Organization name |
Kyungpook National University
|
| Department |
Biotechnology
|
| Lab |
Lab of Molecular Epigenetics
|
| Street address |
Daehak-ro 80
|
| City |
Daegu |
| State/province |
Buk-Gu |
| ZIP/Postal code |
41566 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL27812 |
| Series (1) |
| GSE253055 |
Auto-sumoylation of the Ubc9 E2 SUMO-conjugating Enzyme Extends Cellular Lifespan |
|
| Relations |
| BioSample |
SAMN39412488 |
| SRA |
SRX23171373 |
