Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Nfe2

Cell type

Cell type Class
Blood
Cell type
Pro-B cells
NA
NA

Attributes by original data submitter

Sample

source_name
pre-pro B cells
strain
EBF-/- C57BL/6
cell type
progenitor cells
chip antibody
NF-E2 p18 (c-16)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Ebf1 deficient cells were fixed 1% formaldehyde, followed by quenching with 125mM of glycine. The cells were washed with ice-cold PBS and were lysed. The crosslinked chromatin was shared with a Bioruptor Sonicator (CosmoBio) and target protein-DNA complexes were isolated with antibody. ChIP-seq libraries were prepared from 1~3 ng of ChIP DNA with the use of Ovation Ultralow DR Multiplex System (Nugen). The DNA libraries were clonally amplified on a flow cell and sequenced on HiSeq2500 (HiSeq Control Software v2.2.38, Illumina) with 51-mer paired-end sequence. Image analysis and base calling were performed using Real-Time Analysis Software (v1.18.61, Illumina).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
134465665
Reads aligned (%)
69.5
Duplicates removed (%)
58.5
Number of peaks
13912 (qval < 1E-05)

mm9

Number of total reads
134465665
Reads aligned (%)
69.2
Duplicates removed (%)
59.4
Number of peaks
13902 (qval < 1E-05)

Base call quality data from DBCLS SRA