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, re-fed, input
strain/background
C57BL/6J
gender
male
tissue
Liver
treatment
Re-fed
chip antibody
None
replicate
2

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Livers were crosslinked in situ with 1% formaldehyde for 5 min at RT based on Chaya and Zaret (2003) protocol. Chromatin was isolated using NEXON protocol (Arrigoni et al., 2015). ChIP-seq libraries prepared according to Illumina protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
42905462
Reads aligned (%)
98.8
Duplicates removed (%)
13.1
Number of peaks
550 (qval < 1E-05)

mm9

Number of total reads
42905462
Reads aligned (%)
98.5
Duplicates removed (%)
13.0
Number of peaks
613 (qval < 1E-05)

Base call quality data from DBCLS SRA