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Sample GSM2476215 Query DataSets for GSM2476215
Status Public on Jul 13, 2017
Title Cnd2 ChIP
Sample type SRA
 
Source name mitosis
Organism Schizosaccharomyces pombe
Characteristics strain: YUK421 Cnd2-HA
cell cycle stage: mitosis
treatment: 5 µg/mL thiamine
Treatment protocol Mitotic arrested cells were crosslinked with 0.5 % formaldehyde for 30 minutes at 25 ºC
Growth protocol Cells were grown in EMM supplemented with glutamate. Cells were arrested in mitosis by addition of 5 µg/mL of thiamine.
Extracted molecule genomic DNA
Extraction protocol Crosslinked chromatin was immunoprecipitated with anti-HA antibody.
NEBNext Ultra DNA Library Prep kit for Illumina and NEBNext Multiplex Oligos for Illumina (Index Primers Set 1) were used for adapter ligation and indexing. Indexed Hi-C library was purified by double selection of SPRI selection beads.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2000
 
Description ChIP-seq
Condensin_peaks.xls
Data processing Trimming. Read 1 and read 2 files were trimmed to 50bp
Alignment. Each read in the pair was independently aligned to build ASM294v2.21 of the Pombe genome using the BWA-mem algorithm (version 0.7.12).
Peak identification. Peaks were indentified using Macs2 (version 2.1.0) using the paired input sample as control.
Genome_build: ASM294v2.21
Supplementary_files_format_and_content: An excel spreadsheet summarising parameters and identified ChIP peaks.
 
Submission date Feb 03, 2017
Last update date May 15, 2019
Contact name Yasutaka Kakui
E-mail(s) yasukakui@aoni.waseda.jp
Organization name Waseda Institute for Advanced Study
Street address 1-21-1 Nishiwaseda, Shinjuku-ku
City Tokyo
ZIP/Postal code 169-0051
Country Japan
 
Platform ID GPL13988
Series (2)
GSE94474 Condensin-mediated remodeling of the mitotic chromatin landscape in fission yeast
GSE94478 Condensin-mediated remodeling of the mitotic chromatin landscape in fission yeast
Relations
BioSample SAMN06294191
SRA SRX2536768

Supplementary file Size Download File type/resource
GSM2476215_Condensin_peaks.xls.gz 23.7 Kb (ftp)(http) XLS
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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