Antigen

Antigen Class

TFs and others

Antigen

Ppara

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

GPS2_LKO_liver

strain background

C57BL/6

age

8-12 week

tissue

Liver

chip antibody

PPARa (Millipore, MAB3890)

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

NextSeq 550

mm10

Number of total reads

26196036

Reads aligned (%)

88.4

Duplicates removed (%)

15.9

Number of peaks

61595 (qval < 1E-05)

mm9

Number of total reads

26196036

Reads aligned (%)

88.3

Duplicates removed (%)

15.9

Number of peaks

61544 (qval < 1E-05)