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 Cells
chip antibody
none
treatment
Trim28 siRNA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ES cells were crosslinked with formaldehyde and lysed. Chromatin was sonicated, and ChIP was performed as described in the manuscript. Libraries were constructed using the SPRI-TE Nucleic Acid Extractor (Beckman Coulter, Indianapolis, IN) with a size selection of 200-400bp

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
14418948
Reads aligned (%)
96.3
Duplicates removed (%)
8.0
Number of peaks
441 (qval < 1E-05)

mm9

Number of total reads
14418948
Reads aligned (%)
96.0
Duplicates removed (%)
8.1
Number of peaks
469 (qval < 1E-05)

Base call quality data from DBCLS SRA