Antigen

Antigen Class

DNase-seq

Antigen

DNase-Seq

Cell type

Cell type Class

Liver

Cell type

HuH-7

Primary Tissue

Liver

Tissue Diagnosis

Carcinoma Hepatocellular

Sample

source_name

Huh-7.5

biomaterial_provider

Dr. Ravi Jhaveri at Duke University

datatype

DnaseSeq

datatype description

DNaseI HS Sequencing

cell description

hepatocellular carcinoma, hepatocytes selected for high levels of hepatitis C replication

controlid

generic_male

labversion

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

replicate

1,2

cell description

Hepatocellular carcinoma, hepatocytes selected for high levels of hepatitis C replication

cell karyotype

cancer

cell lineage

endoderm

cell sex

M

controlid

generic_male

labversion

align_on_cluster_bwa.pl v 1

replicate

1

replicate description

tier 1

Sequenced DNA Library

library_name

GSM816671: Duke_DnaseSeq_Huh-7.5

library_strategy

DNase-Hypersensitivity

library_source

GENOMIC

library_selection

DNase

Sequencing Platform

instrument_model

Illumina Genome Analyzer

hg38

Number of total reads

140407906

Reads aligned (%)

0.9

Duplicates removed (%)

22.6

Number of peaks

671 (qval < 1E-05)

hg19

Number of total reads

140407906

Reads aligned (%)

0.9

Duplicates removed (%)

22.8

Number of peaks

682 (qval < 1E-05)