Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RCOR1

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
THP1 cells
disease state
AML
antibody
RCOR1 (07-455 from Merck Millipore)
treatment
250nM OG86

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIPs for acetyl-H3K9 (ab4441), acetyl-H3K27 (ab4729) (both from Abcam) RCOR1 (07-455 from Merck Millipore), SPI1 (2258 from Cell Signaling) and MLL4 (kindly provided by Dr Kai Ge; Wang et al., 2016) were performed using 50-100 million cells and the protocol of Lee et al. (2006). ChIP DNA samples were prepared for sequencing using the Microplex Library Preparation Kit (Diagenode) and 1ng ChIP DNA. Libraries were size selected with AMPure beads (Beckman Coulter) for 200-800 base pair size range and quantified by Q-PCR using a KAPA Library Quantification Kit. ChIPseq data were generated using the NextSeq platform from Illumina with 2x75bp Mid Output.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
57455469
Reads aligned (%)
101.7
Duplicates removed (%)
47.3
Number of peaks
778 (qval < 1E-05)

hg38

Number of total reads
57455469
Reads aligned (%)
103.5
Duplicates removed (%)
46.8
Number of peaks
1314 (qval < 1E-05)

Base call quality data from DBCLS SRA