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
Embryonic stem cell
cell line
Pou3f1-overexpressing ESC
time
ESC neural differentiation day2
chip antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, cell lysates were clarified from sonicated nuclei and Pou3f1-DNA complexes were precipitated with Pou3f1 antibody (Santa Cruz, sc-11661, Lot# C2012), then genomic DNA was recoveried and purified for subsequent library construction. DNA libraries were prepared for sequencing using standard Illumina protocols

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
27915160
Reads aligned (%)
98.2
Duplicates removed (%)
83.6
Number of peaks
201 (qval < 1E-05)

mm9

Number of total reads
27915160
Reads aligned (%)
98.0
Duplicates removed (%)
83.8
Number of peaks
200 (qval < 1E-05)

Base call quality data from DBCLS SRA