Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Liver
Cell type
Hepatic Stellate Cells
MeSH Description
Hepatic stellate cells that have differentiated into myofibroblast-like cells in response to liver injury.

Attributes by original data submitter

Sample

source_name
hepatic stellate cells (HSCs)
tissue
liver
cell type
Primary fetal HSCs differentiated into HSC myofibroblasts
passage
passage 7-8

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq analysis, cells were crosslinked with 1% formaldehyde and sheared by sonication. Histone-DNA complexes were isolated by antibodies against H3K4me3 (Millipore 07-473, lot 2019729) and H3K27ac (Abcam Ab4729, lot GR132150-1) ChIP-seq libraries were prepared according to Illumina's instructions accompanying the TruSeq ChIP Kit and barcoded for sequencing.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
13835752
Reads aligned (%)
92.0
Duplicates removed (%)
33.4
Number of peaks
27450 (qval < 1E-05)

hg19

Number of total reads
13835752
Reads aligned (%)
91.8
Duplicates removed (%)
33.6
Number of peaks
27334 (qval < 1E-05)

Base call quality data from DBCLS SRA