Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
EP300

Cell type

Cell type Class
Cardiovascular
Cell type
Endothelial Cells
MeSH Description
Highly specialized EPITHELIAL CELLS that line the HEART; BLOOD VESSELS; and lymph vessels, forming the ENDOTHELIUM. They are polygonal in shape and joined together by TIGHT JUNCTIONS. The tight junctions allow for variable permeability to specific macromolecules that are transported across the endothelial layer.

Attributes by original data submitter

Sample

source_name
F1-ECs
cell type
Endothelial cells (ECs)
passage
P3-4
chip antibody
p300 antibody (C-20)
chip antibody vendor
Santa Cruz Biotechnology

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Total RNAs were extracted by RNeasy Plus Mini kit (Qiagen) according to the manufacturer’s protocol. RNA-seq libraries were generated using the NuGEN Encore Complete RNA-seq Library Systems (Part No. 0311, NuGEN). Chromatin immunoprecipitation were performed using approximately 1x10^7 cells of human iPSCs, fibroblasts, endothelial cells, and cardiac progenitor cells. Cells were first cross-linked with 1% formaldehyde for 10 min at RT, and formaldehyde was quenched by glycine with a final concentration of 0.125 M. Chromatin was broken into small pieces with an average size of 0.5-2 kb using the Bioruptor (Diagenode). The sonicated chromatin was then incubated with 3-5 μg of primary antibodies overnight at 4°C. A small portion (10%) of chromatin without antibody incubation was kept as input DNA for each ChIP reaction. Subsequently, 75 μl of Dynabeads Protein A or Protein G were added and incubator for 4 h at 4°C with overhead shaking. Magnetic beads were then washed away and chromatin was eluted. Crosslink was then reversed and precipitated DNA was purified and resuspended in nuclease-free water. Sequencing libraries of immunoprecipitated DNA and input DNA were constructed according to an Illumina DNA library preparation protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
40181261
Reads aligned (%)
56.7
Duplicates removed (%)
41.6
Number of peaks
17461 (qval < 1E-05)

hg38

Number of total reads
40181261
Reads aligned (%)
58.3
Duplicates removed (%)
40.5
Number of peaks
17238 (qval < 1E-05)

Base call quality data from DBCLS SRA