Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

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.

Attributes by original data submitter

Sample

source_name
Liver from high-fat diet fed mice
tissue
Liver
diet
high-fat diet
strain
C57BL/6
age
adult
Sex
male
chip-antibody
input
protocol
Barish and Tangirala, 2013

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared using NEBNext Ultra II DNA Library Preparation kits (NEB) according to the manufacturer's instructions. Quality of the library and concentration were determined by Bioanlayzer using the High Sensitivity chip (Agilent) and qPCR-based quantification (NEBNext Library Quant Kit), respectively.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
28811607
Reads aligned (%)
97.3
Duplicates removed (%)
20.1
Number of peaks
260 (qval < 1E-05)

mm9

Number of total reads
28811607
Reads aligned (%)
97.1
Duplicates removed (%)
20.1
Number of peaks
260 (qval < 1E-05)

Base call quality data from DBCLS SRA