Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27me3

Cell type

Cell type Class
Blood
Cell type
Treg
NA
NA

Attributes by original data submitter

Sample

source_name
CD4+CD25highCD127low/- Treg cells
cell type origin
Peripheral blood mononuclear cells (PBMC)
cell type
CD4+CD25highCD127low/- Treg
cell subtype
expanded human FOXP3+ Treg cells
days of expansion
35
foxp3 status
positive
chip antibody
H3K27me3
chip antibody vendor
abcam

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked with 1% formaldehyde and chromatin was sonicated to obtain an average fragment length of 200 to 500 bp. After preclearing with protein A agarose beads (Upstate, USA), sonicated chromatin was precipitated with anti-H3K4m3 and anti-H3K27m3 (abcam, United Kingdom) overnight at 4℃. The immune complexes were bound to protein A agarose beads (Upstate, USA). After washing and elution, crosslinks were reversed at 65℃ overnight. The eluted DNA was treated sequentially with Proteinase K and RNase A, and purified with the QIAquick PCR-purification kit (Qiagen, Germany). The enrichment efficiency of ChIP was detected using qPCR approach. The purified DNA fragments was repaired using PNK and Klenow enzyme, and ligated to adapters. Subsequently, PCR-amplified fragments of around 100-300bp were sequenced using Illumina HiSeq™ 2000 following manufacturer’s protocols (www.illumina.com).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
19026413
Reads aligned (%)
99.0
Duplicates removed (%)
6.9
Number of peaks
540 (qval < 1E-05)

hg19

Number of total reads
19026413
Reads aligned (%)
98.4
Duplicates removed (%)
7.7
Number of peaks
675 (qval < 1E-05)

Base call quality data from DBCLS SRA