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Sample GSM2863083 Query DataSets for GSM2863083
Status Public on Nov 01, 2022
Title H3K4WT
Sample type SRA
Source name mouse peritoneal macrophages
Organism Mus musculus
Characteristics cell type: thioglycollate broth induced peritoneal macrophages
strain: C57BL/6
age: 8 weeks
chip antibody: H3K4me3 (abcam, ab8580)
genotype: wild type
Growth protocol The thioglycollate broth-induced peritoneal macrophages are harvested and are cultured in 10 cm dishes with 10%FBS DMEM cultures.
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
Libraries were constructed according to standard Illumina protocols.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2500
Data processing Basecalls performed using CASAVA version 1.4
ChIP-seq reads were aligned to the mm10 genome assembly using Bowtie version 0.12.8.
peaks were called using MACS version 1.4.2 and Different peaks were caculated by DiffBind in R with the Fold change >=2 and p value <0.05.
Genome_build: mm10
Supplementary_files_format_and_content: peaks files were generated by MACS version 1.4.2 20120305. Fold_enrichment reprensent fold change. Fold change >=2 and p value <0.05.
Submission date Nov 21, 2017
Last update date Nov 01, 2022
Contact name Shi Jiao
Organization name Shanghai Institutes of Biological Sciences
Street address 320 Yue Yang Road
City Shanghai
ZIP/Postal code 200031
Country China
Platform ID GPL17021
Series (1)
GSE107227 Genome-wide maps of H3K4me3 and H3K9me3 in SUN-depleted macrophages
BioSample SAMN08050982
SRA SRX3413648

Supplementary file Size Download File type/resource
GSM2863083_H3K4WT_macs_peaks.txt.gz 617.6 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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