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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)
Link Out
Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: H3K9me3
wikigenes
PDBj
CellType: Osteobl
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX067432
GSM733681: Bernstein Osteobl H3K9me3
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Histone
Antigen
H3K9me3
Cell type
Cell type Class
Bone
Cell type
Osteobl
Tissue
bone
Lineage
mesoderm
Description
osteoblasts (NHOst)
Attributes by original data submitter
Sample
source_name
Osteobl
biomaterial_provider
Lonza
donor_id
ENCDO271AAA,ENCDO834SRG
biomaterial_type
primary cell
cell_type
osteoblast
lab
Broad
lab description
Bernstein - Broad Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell organism
human
cell description
osteoblasts (NHOst)
cell lineage
mesoderm
cell sex
U
antibody antibodydescription
rabbit polyclonal, ChIP grade. Antibody Target: H3K9me3
antibody
H3K9me3
antibody targetdescription
Histone H3 (tri methyl K9). Is associated with repressive heterochromatic state (silenced chromatin). NOTE CONTRAST to H3K9me1 which is associated with active and accessible regions.
antibody vendorname
abcam
antibody vendorid
ab8898
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH001056
replicate
1,2
softwareversion
ScriptureVPaperR3
Sequenced DNA Library
library_name
GSM733681: Bernstein_Osteobl_H3K9me3
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
90323609
Reads aligned (%)
89.4
Duplicates removed (%)
11.3
Number of peaks
2452 (qval < 1E-05)
hg19
Number of total reads
90323609
Reads aligned (%)
87.8
Duplicates removed (%)
14.5
Number of peaks
1879 (qval < 1E-05)
Base call quality data from
DBCLS SRA