|
| Status |
Public on Dec 31, 2019 |
| Title |
Input2 |
| Sample type |
SRA |
| |
|
| Source name |
cell
|
| Organism |
Schizosaccharomyces pombe |
| Characteristics |
strain: Hap2-GFP Arp5-3HA
chip antibody: NA
|
| Growth protocol |
Schizosaccharomyces pombe cell were gwon in rich medium (1X YES).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were prepared using standard bead beating procedure, sonicated to achieve fragmements of 200-400bp andclarified by centrifugation at 17000g.
ChIP-seq libraries were prepared essentially as described in Shukla et al., 2017.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina MiniSeq |
| |
|
| Data processing |
Quality filtering was performed using trimmomatic v0.36. Read mapping was performed using bwa v0.7.17 to S. pombe genome GCF_000002945.1. Bigwigs were generated using bamCompare v3.1.3 from deeptools. Peak calling was performed using macs2 v2.1.2. Overlap of the peak files were called using bamtools v2.5.1.
Genome_build: GCF_000002945.1
Supplementary_files_format_and_content: Bigwigs were generated using bamCompare v3.1.3 from deeptools.
|
| |
|
| Submission date |
Dec 05, 2019 |
| Last update date |
Dec 31, 2019 |
| Contact name |
Marcel Lafos |
| E-mail(s) |
Marcel.Lafos@ed.ac.uk
|
| Organization name |
University of Edinburgh
|
| Department |
Institute of Cell Biology
|
| Lab |
Allshire Lab
|
| Street address |
Max Born Crescent
|
| City |
Edinburgh |
| State/province |
Scotland |
| ZIP/Postal code |
EH9 3BF |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL25575 |
| Series (1) |
| GSE141524 |
Analysis of Hap2-GFP and Arp5-3HA ChIP-Seq from fission yeast |
|
| Relations |
| BioSample |
SAMN13490065 |
| SRA |
SRX7276862 |
