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For hg38
Colocalization
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For hg19
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
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For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
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Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: H3K4me3
wikigenes
PDBj
CellType: Hep G2
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX067488
GSM733737: Bernstein 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
biomaterial_type
immortalized cell line
line
HepG2
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: H3K4me3
antibody
H3K4me3
antibody targetdescription
Histone H3 (tri methyl K4). Marks promoters that are active or poised to be activated.
antibody vendorname
1)abcam; 2)Millipore
antibody vendorid
ab8580; 07-473
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
GSM733737: Bernstein_HepG2_H3K4me3
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
21828198
Reads aligned (%)
94.2
Duplicates removed (%)
8.8
Number of peaks
39051 (qval < 1E-05)
hg19
Number of total reads
21828198
Reads aligned (%)
93.7
Duplicates removed (%)
9.1
Number of peaks
38972 (qval < 1E-05)
Base call quality data from
DBCLS SRA