Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HMGB1

Cell type

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

Attributes by original data submitter

Sample

source_name
Umbilical vein endothelial cells HUVEC
cell line
HUVEC
condition
Proliferating
chip antibody
HMGB1 Hybridoma Ab (PCRP-HMGB1-4F10)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
~25 million cells per sample were double crosslinked in EGS/PFA and processed with ChIP-IT high sensitivity kit (Active motif) as per manufacturer instructions. Immunoprecipitation was carried out with 4 ug of HMGB1 antibody (Hybridoma, PCRP-HMGB1-4F10) in 30 ug of chromatin. DNA was purified with ChIP DNA Clean & Concentrator kit (Zymo). TruSeq Library Preparation Kit (Illumina).

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
35183616
Reads aligned (%)
93.1
Duplicates removed (%)
43.6
Number of peaks
19254 (qval < 1E-05)

hg19

Number of total reads
35183616
Reads aligned (%)
92.4
Duplicates removed (%)
44.3
Number of peaks
19193 (qval < 1E-05)

Base call quality data from DBCLS SRA