Antigen

Antigen Class

Histone

Antigen

H3K4me1

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/6J

tissue

liver

diet

chow diet

age

24 weeks

chip antibody

H3K4me1 (Millipore, 17-676)

genotype

wild type

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

We euthanized all mice at 24 weeks after an overnight fast and froze the livers prior to removal using clamps cooled in liquid nitrogen. The frozen livers were then pulverized into a powder using a CryoPREP impactor (Covaris). We prepared aliquots of pulverized liver for all samples and used these for subsequent library construction. Histone modification ChIP experiments were performed using the MAGnify Chromatin Immunoprecipitation System kit (Life Technologies, Carlsbad, CA) with an antibody against H3K4me1 (Millipore, 17-676). ChIP-Seq libraries were constructed using the NEBNext DNA Library Prep Master Mix Set for Illumina (New England Biolabs, Ipswich, MA) and sequenced on an Illumina Hi-Seq 2000 machine.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

36566106

Reads aligned (%)

98.7

Duplicates removed (%)

11.2

Number of peaks

40925 (qval < 1E-05)

mm9

Number of total reads

36566106

Reads aligned (%)

98.6

Duplicates removed (%)

11.3

Number of peaks

40929 (qval < 1E-05)