Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

source_name
input
cell line
V6.5
cell type
murine embryonic stem cells (mESCs)
chip antibody
none
young_id
20180803_7416

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Purified immunoprecipitated DNA isolated using Qiagen PCR purification kit. ChIP Libraries were prepared with the Swift Biosciences Accel-NGS® 2S Plus DNA Library Kit according to kit instructions. Final libraries were quantified by qPCR with the KAPA Library Quantification kit from Roche and sequenced in single-read mode for 40 bases. Whole cell extracts were sonicated to solubilize the chromatin. The chromatin extracts containing DNA fragments with an average size of 200-400 bp were immunoprecipitated using different antibodies.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
44498295
Reads aligned (%)
80.3
Duplicates removed (%)
11.2
Number of peaks
708 (qval < 1E-05)

mm9

Number of total reads
44498295
Reads aligned (%)
80.1
Duplicates removed (%)
11.2
Number of peaks
782 (qval < 1E-05)

Base call quality data from DBCLS SRA