Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9ac

Cell type

Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name
HepG2
biomaterial_provider
ATCC
lab
Broad
lab description
Bernstein - Broad Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell organism
human
cell description
hepatocellular carcinoma
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K9ac
antibody targetdescription
Histone H3 (acetyl K9). As with H3K27ac, associated with transcriptional initiation and open chromatin structure. It remains unknown whether acetylation can have different consequences depending on the specific lysine residue targeted. In general, though, there appears to be high redundancy. Histone acetylation is notable for susceptibility to small molecules and drugs that target histone deacetylases.
antibody vendorname
abcam
antibody vendorid
ab4441
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000084
replicate
1,2
softwareversion
ScriptureVPaperR3

Sequenced DNA Library

library_name
GSM733638: Bernstein_HepG2_H3K9ac
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg38

Number of total reads
33368526
Reads aligned (%)
79.9
Duplicates removed (%)
13.0
Number of peaks
27997 (qval < 1E-05)

hg19

Number of total reads
33368526
Reads aligned (%)
79.6
Duplicates removed (%)
13.4
Number of peaks
28039 (qval < 1E-05)

Base call quality data from DBCLS SRA