Toggle navigation
Peak Browser
Enrichment Analysis
Diff Analysis
Target Genes
Colocalization
Publications
Docs
Search
Go
Find By ID
Visualize
Install and launch IGV before selecting data to visualize
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)
Error connecting to IGV?
Analyze
For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For hg19
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
Download
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: H3K4me3
wikigenes
PDBj
CellType: hESC H1
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX2283108
GSM2365679: H1-EPS H3K4me3; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
Histone
Antigen
H3K4me3
Cell type
Cell type Class
Pluripotent stem cell
Cell type
hESC H1
NA
NA
Attributes by original data submitter
Sample
source_name
Human extended PSCs, H3K4me3 ChIP
cell line
H1-EPS
cell type
Human extended pluripotent stem cells
chip antibody
anti-H3K4me3 (Millipore, cat. no. 07-473, lot# 2152225)
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-Seq library was prepared using the NEBNext® Ultra™ DNA Library Prep Kit for Illumina according to the manufacturer's instructions.
Sequencing Platform
instrument_model
Illumina HiSeq 2500
Where can I get the processing logs?
Read processing pipeline
log
hg38
Number of total reads
34917930
Reads aligned (%)
88.3
Duplicates removed (%)
4.5
Number of peaks
26766 (qval < 1E-05)
hg19
Number of total reads
34917930
Reads aligned (%)
88.2
Duplicates removed (%)
4.5
Number of peaks
26641 (qval < 1E-05)
Base call quality data from
DBCLS SRA