Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

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
Leukemia cell line (THP1)
cell line
THP1
treatment
N/A
cell type
Paediatric monocytic cell line derived from AML M5 with t(9;11)(q21;q23) translocation
chip antibody
Diagenode cat no. C15410196 lot no. A1723-0041D

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were washed with PBS and fixed in either 1% FA for 10 minutes (histones) or 2mM DSG for 30 minutes and 1% FA for 30 minutes (transcription factors). Cells were sonicated to give fragments of 100-300bp followed by IP. For ChIP-rx fixed SEM cells were mixed at a 4:1 ratio with fixed Drosophila S2 cells prior to sonication. DNA libraries were made using the NEBnext ultra DNA library preparation kit for Illumina (Cat no. E7370).

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
34204103
Reads aligned (%)
97.2
Duplicates removed (%)
1.7
Number of peaks
38480 (qval < 1E-05)

hg19

Number of total reads
34204103
Reads aligned (%)
96.6
Duplicates removed (%)
1.8
Number of peaks
38575 (qval < 1E-05)

Base call quality data from DBCLS SRA