Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Blood
Cell type
Jurkat
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Lymphocytic

Attributes by original data submitter

Sample

source_name
JURKAT (T-ALL)
cell type
T-ALL
cell line
JURKAT
chip antibody
CTCF
antibody manufacturer
CST
antibody catalog number
3418
antibody lot number
3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq was performed using standard protocols (Millipore, Billerica, MA). Specifically, cells were fixed in 1% formaldehyde (Sigma Aldrich, F8775) for 10min at 37C and quenched with 125mM glycine for 5min at 37C. After washing, nuclei were sonicated using Covaris Sonicator, and the supernatant was used for immunoprecipitation with the indicated antibody. ChIP-sequencing libraries were prepared with the Rubicon Thruplex DNAseq prep kit using standard protocols.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
45704160
Reads aligned (%)
31.4
Duplicates removed (%)
67.7
Number of peaks
61010 (qval < 1E-05)

hg38

Number of total reads
45704160
Reads aligned (%)
32.6
Duplicates removed (%)
66.6
Number of peaks
60962 (qval < 1E-05)

Base call quality data from DBCLS SRA