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
ESC cells
cell type
ESC cells
antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, cells were harvested and crosslinked in suspension with 1% formaldehyde for 10 minute at room temperature. Crosslinked cells were lysed, sonicated and chromatin was collected for IP. 2-5 ug of antibody was used for each IP. IPed chromatin was captured by Protein A beads. After washing, bound complexes were eluted and crosslinking was reversed. DNA was extracted using phenol-chloroform and purified by ethanol precipitation.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
70998759
Reads aligned (%)
98.0
Duplicates removed (%)
23.7
Number of peaks
623 (qval < 1E-05)

mm9

Number of total reads
70998759
Reads aligned (%)
97.8
Duplicates removed (%)
23.7
Number of peaks
683 (qval < 1E-05)

Base call quality data from DBCLS SRA