Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

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
Culture
cell line
THP-1
treatment protocol
8h with 1,25(OH)2D3
chip antibody
H3K4me3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were grown in culture as mentioned above, after which they were crosslinked with formaldehyde, lysed and the DNA was extracted. Then, ChIP was performed using antibody against H3K4me3 (Millipore, cat.# 07-473, lot# 2557645). ChIP DNA was sent to EMBL and the library was prepared there according to their protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
20716874
Reads aligned (%)
99.3
Duplicates removed (%)
16.0
Number of peaks
30696 (qval < 1E-05)

hg19

Number of total reads
20716874
Reads aligned (%)
98.9
Duplicates removed (%)
16.4
Number of peaks
30745 (qval < 1E-05)

Base call quality data from DBCLS SRA