SRX189965
GSM945182: UW ChipSeq HepG2 H3K4me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

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
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HepG2
cell organism
human
cell description
hepatocellular carcinoma
cell karyotype
cancer
cell lineage
endoderm
cell sex
M
antibody
H3K4me3
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K4me3
antibody targetdescription
Histone H3 (tri methyl K4). Marks promoters that are active or poised to be activated.
antibody vendorname
Millipore
antibody vendorid
07-473
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000470
labexpid
DS11781
labversion
Bowtie 0.12.5
replicate
1

Sequenced DNA Library

library_name
GSM945182: UW_ChipSeq_HepG2_H3K4me3
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
32756706
Reads aligned (%)
92.6
Duplicates removed (%)
19.3
Number of peaks
36942 (qval < 1E-05)

hg19

Number of total reads
32756706
Reads aligned (%)
92.4
Duplicates removed (%)
19.6
Number of peaks
36938 (qval < 1E-05)

Base call quality data from DBCLS SRA