|
Status |
Public on Dec 31, 2019 |
Title |
Arp5-3HA2 |
Sample type |
SRA |
|
|
Source name |
cell
|
Organism |
Schizosaccharomyces pombe |
Characteristics |
strain: Hap2-GFP Arp5-3HA chip antibody: anti-HA
|
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 |
Jan 01, 2020 |
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 |
SAMN13490069 |
SRA |
SRX7276858 |