Antigen

Antigen Class

Histone

Antigen

H3K27ac

Cell type

Cell type Class

Liver

Cell type

Liver

MeSH Description

A large lobed glandular organ in the abdomen of vertebrates that is responsible for detoxification, metabolism, synthesis and storage of various substances.

Sample

source_name

Liver

strain

C57BL/6

age

8-12 week

genotype/variation

GPS2_LKO

tissue

liver

chip antibody

H3K27ac (Abcam, ab4729)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Fresh mouse livers were crosslinked with 2 mM disuccinimidyl glutarate (DSG) for 30 min, followed by 1% formaldehyde for 10 min at room temperature. Nuclei were isolated, sonicated and incubated with magnetic bead-antibody complexes.  ChIPed DNA was processed using Rubicon ThruPLEX DNA-seq kit. Briefly, DNA was end-repaired and ligated to stem-loop adaptors. Then DNA was PCR amplified with Illumina-compatible primers for 7-11 cycles and library fragments of 200 to 400 bp were selected using Ampure XP beads.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

33323021

Reads aligned (%)

99.4

Duplicates removed (%)

14.2

Number of peaks

49435 (qval < 1E-05)

mm9

Number of total reads

33323021

Reads aligned (%)

99.3

Duplicates removed (%)

14.3

Number of peaks

49446 (qval < 1E-05)