Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RBBP4

Cell type

Cell type Class
Muscle
Cell type
RH-4
NA
NA

Attributes by original data submitter

Sample

source_name
RH4
cell line
RH4
antibody
RBBP4, Epigentek (catA-2703 lotA511004 pAb)
enrichment target
RBBP4
condition
NuRD Complex
target function
no treatment

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP samples harvested after 1% formaldehyde fixation for 12 minutes, sonicated, processed and ChIP-enriched via standard protocols (Active Motif ChIP-IT HS kit). ChIP enriched DNA was treated with Proteinase K at 55 ˚C for 30 minutes followed by reversal of crosslinks by heating to 80 ˚C for 2 hours, and DNA purification by column (MiniElute PCR purification kit, Qiagen). DNA was extracted from ChIP-seq samples prepared following the Active Motif ChIP-IT High Sensitivity kit protocol. Standard Illumina barcodes were introduced during library preparation with the Illumina TruSeq ChIP Sample Prep Kit 48 Samples - Set A Cat# IP-202-1012

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
25073643
Reads aligned (%)
88.5
Duplicates removed (%)
8.8
Number of peaks
38544 (qval < 1E-05)

hg38

Number of total reads
25073643
Reads aligned (%)
89.6
Duplicates removed (%)
8.1
Number of peaks
38743 (qval < 1E-05)

Base call quality data from DBCLS SRA