Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Cardiovascular
Cell type
HUVEC
Primary Tissue
Umbilical Cord
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
Human Umbilical Vein Endothelial Cells
cell type
HUVEC
individual
Han-3
stress
normoxia
time
0h

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Total RNA was isolated using TRIzol reagent (Ambion). Libraries from the resulting total RNA were prepared using the TruSeq paired-end mRNASeq kit. We used the TruePrep DNA Library Prep Kit V2 for Illumina (Vazyme, TD501) to prepare the ready-to-use DNA library for ATAC-Seq Hi-C library was performed as described in Belaghzal H et al, 2017.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
93378924
Reads aligned (%)
52.0
Duplicates removed (%)
28.2
Number of peaks
42633 (qval < 1E-05)

hg19

Number of total reads
93378924
Reads aligned (%)
51.8
Duplicates removed (%)
28.5
Number of peaks
42134 (qval < 1E-05)

Base call quality data from DBCLS SRA