Antigen

Antigen Class

DNase-seq

Antigen

DNase-Seq

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.

Sample

source_name

Stellate

biomaterial_provider

Dr. Steve Choi at Duke University

datatype

DnaseSeq

datatype description

DNaseI HS Sequencing

cell description

hepatic stellate cells, liver that was perfused with collagenase and sellected for hepatic stellate cells by density gradient

controlid

generic_female

labversion

baseAlignCounts.pl v 1,p-value cutoff: 0.05,fseq v 1.84, iff_generic_female

replicate

1,2

cell description

Human Hepatic Stellate Cells, Liver that was perfused with collagenase and sellected for hepatic stellate cells by density gradient

cell karyotype

normal

cell lineage

endoderm

cell sex

F

controlid

generic_female

labversion

align_on_cluster_bwa.pl v 1

replicate

1

replicate description

tier 1

Sequenced DNA Library

library_name

GSM816672: Duke_DnaseSeq_Stellate

library_strategy

DNase-Hypersensitivity

library_source

GENOMIC

library_selection

DNase

Sequencing Platform

instrument_model

Illumina Genome Analyzer

hg38

Number of total reads

172106237

Reads aligned (%)

0.8

Duplicates removed (%)

18.3

Number of peaks

198 (qval < 1E-05)

hg19

Number of total reads

172106237

Reads aligned (%)

0.8

Duplicates removed (%)

18.5

Number of peaks

209 (qval < 1E-05)