Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BCL11B

Cell type

Cell type Class
Blood
Cell type
PBMC
Tissue
blood
Lineage
mesoderm
Description
peripheral blood mononuclear cells

Attributes by original data submitter

Sample

source_name
Regulatory T cells
tissue
Human PBMC
chip antibody
4ug each of Anti-Bcl11b Antibodies: Abcam ab18465, Bethyl A300-385, and 20ul of CST D6F1
group
treatment

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Isolated cells were fixed with 1% formaldehyde in PBS for 10 minutes, then quenched with glycine. After washing, DNA was extracted using the Illumina SimpleChIP Enzymatic ChIP kit (#9003S). Briefly, nuclei were isolated by incubating in 1ml buffer A for 10 min on Ice, followed by centrifugation and resuspension in 1 ml Buffer B. Chromatin was sheared to roughly 200-1000bp. Samples were centrifuged to clear lysates, and the supernatant containing the DNA was transferred to a fresh tube for overnight antibody complexing. Next day, protein G dynabeads were added to each tube, incubated, washed, and isolated with magnet. DNA complexes were then released from the beads, decrosslinked, and phenol:choloroform:isolamyl alcohol extracted for library prep. DNA libraries were prepared using NEBNext Ultra II DNA Library Prep Kit for Illumina. Briefly, DNA ends were repaired, followed by ligation of adapter sequences. DNA was cleaned with AMPure XP beads, and then DNA was PCR amplified with 7-8 cycles. After final cleaup with AMPure XP Beads, libraries were quantified using Agilent Bioanalyzer high sensitivity DNA kit and were subsequently sequenced.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
61443576
Reads aligned (%)
49.5
Duplicates removed (%)
8.6
Number of peaks
4935 (qval < 1E-05)

hg38

Number of total reads
61443576
Reads aligned (%)
50.7
Duplicates removed (%)
7.2
Number of peaks
5057 (qval < 1E-05)

Base call quality data from DBCLS SRA