|
| Status |
Public on May 01, 2024 |
| Title |
nmt41Chp2pamcherry |
| Sample type |
SRA |
| |
|
| Source name |
EMMC media, grown to log phase at 32C, then grown at 18C for 2 hours
|
| Organism |
Schizosaccharomyces pombe |
| Characteristics |
cell type: EMMC media, grown to log phase at 32C, then grown at 18C for 2 hours
genotype: nmt41-Chp2-pamCherry
chip antibody: mCherry
|
| Treatment protocol |
Cells were resuspended in PBS, crosslinked with 1.5mM EGS for 30 min at 25C followed by 1% formaldehyde for 30min at 25C. Then quenched with 130mM glycine.
|
| Growth protocol |
EMMC media, grown to log phase at 32C, then grown at 18C for 2 hours
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cells were lysed with bead beating
ChIP-seq libraries were prepared with NEBNext® Ultra™ II DNA Library Prep Kit for Illumina. 1 ng of DNA was used as starting material.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
The sequences were trimmed with Trimmomatic. Then aligned with BWA. Samtools was used to index and sort the reads. Then bamCoverage was used to make bigwig files using normalization RPKM.
Assembly: Schizosaccharomyces_pombe_all_chromosomes
Supplementary files format and content: bigwig
|
| |
|
| Submission date |
Apr 08, 2024 |
| Last update date |
May 01, 2024 |
| Contact name |
Melissa Seman |
| E-mail(s) |
mseman@brandeis.edu
|
| Organization name |
Brandeis University
|
| Street address |
415 South St
|
| City |
Waltham |
| ZIP/Postal code |
02453 |
| Country |
USA |
| |
|
| Platform ID |
GPL20584 |
| Series (1) |
| GSE263472 |
Tracking live-cell single-molecule dynamics enables measurements of heterochromatin-associated protein-protein interactions |
|
| Relations |
| BioSample |
SAMN40887453 |
| SRA |
SRX24191746 |
