SRX099898
GSM798321: Broad ChipSeq HepG2 H3K4me1

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

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
biomaterial_type
immortalized cell line
line
HepG2
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
hepatocellular carcinoma
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K4me1
antibody
H3K4me1
antibody targetdescription
Histone H3 (mono methyl K4). Is associated with enhancers, and downstream of transcription starts.
antibody vendorname
abcam
antibody vendorid
ab8895
treatment
None
treatment description
No special treatment or protocol applies
controlid
wgEncodeEH000084
replicate
1,2
softwareversion
ScriptureVPaperR3
antibody targetdescription
Histone H3 (mono methyl K4). Is associated with enhancers, and downstream of transcription starts.
antibody vendorname
Abcam
antibody vendorid
ab8895
control
std
control description
Standard input signal for most experiments.
controlid
HepG2/Input/std
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM798321: Broad_ChipSeq_HepG2_H3K4me1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
62301652
Reads aligned (%)
99.0
Duplicates removed (%)
6.2
Number of peaks
92848 (qval < 1E-05)

hg19

Number of total reads
62301652
Reads aligned (%)
98.7
Duplicates removed (%)
6.5
Number of peaks
92582 (qval < 1E-05)

Base call quality data from DBCLS SRA