Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC derived endothelial cells
NA
NA

Attributes by original data submitter

Sample

source_name
Endothelial cells
cell line/strain
H1
cell type
hESCs derived Endothelial cells
antibody
H3K4me3
genotype
H1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, 1×107 cells of each sample were crosslinked in 1% formaldehyde with rotation for 10 minutes at room temperature. And then these crosslinked reactions were stopped by 0.125 M glycine with rotation for 5 minutes at room temperature. and cell sample were sonicated, and then ChIPed with H3K27me3 antibodies. DNA libraries were prepared for sequencing using standard Illumina protocols.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
6738242
Reads aligned (%)
96.9
Duplicates removed (%)
8.2
Number of peaks
16538 (qval < 1E-05)

hg19

Number of total reads
6738242
Reads aligned (%)
95.9
Duplicates removed (%)
9.7
Number of peaks
16457 (qval < 1E-05)

Base call quality data from DBCLS SRA