Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Blood
Cell type
THP-1
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by original data submitter

Sample

source_name
THP-1 CTCF ChIPseq
cell line
THP-1
cell type
monocytic cell
genotype
MLL-AF9
chip antibody
CTCF : 07-729 Millipore Lot. DAM1745366

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Protein-DNA complexes were immunoprecipitated from sonicated chromatin extract by the specific antibody. ChIP-seq DNA sample prep kit (Illumina, catalog number 1003473) according to the manufacturer’s protocol. For BARCODE ChIP-seq library we used the BARCODE adaptor for generating the library (BARCODE adaptor: PMID 19159457).

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg19

Number of total reads
40485849
Reads aligned (%)
83.3
Duplicates removed (%)
13.3
Number of peaks
28997 (qval < 1E-05)

hg38

Number of total reads
40485849
Reads aligned (%)
85.4
Duplicates removed (%)
11.8
Number of peaks
29084 (qval < 1E-05)

Base call quality data from DBCLS SRA