Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Blood
Cell type
SEM
Primary Tissue
Blood
Tissue Diagnosis
Leukemia

Attributes by original data submitter

Sample

source_name
B cell precursor leukemia
cell type
B cell precursor leukemia
strain
SEM
tissue
B cell precursor leukemia
genotype/variation
Clone 27 minus IAA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cut&Run ChiP-seq was performed according the the protocol in, Skene PJ, Henikoff S. 2017. An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites on Elife. Antibodies against CTCF for a pulldown assay. CTCF antibody from (abcam, ab70303) was used for immunoprecipitation. NEBNext Ultra II DNA Library Prep Kit from New England Biolabs (E7645S) Cut&Run ChiP-seq

Sequencing Platform

instrument_model
Illumina MiSeq

hg38

Number of total reads
11840873
Reads aligned (%)
62.8
Duplicates removed (%)
1.6
Number of peaks
16650 (qval < 1E-05)

hg19

Number of total reads
11840873
Reads aligned (%)
62.5
Duplicates removed (%)
1.6
Number of peaks
16637 (qval < 1E-05)

Base call quality data from DBCLS SRA