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
mouse embryonic stem cells
treatment
untreated
cell line
E14tg2a
background strain
129SV
Stage
embryonic
chip antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells we fixed in 1% formaldehyde at RT for 10 minutes, nuclei extracted and chromatin sonicated using a bioruptor (10 cycles, 30s on 30s off). Cleared chromatin was incubated with anti-H3K27ac antibody (Abcam, ab4729). Input DNA serves as negative control for antibody enrichment. Libraries were prepared using the NEB Next Ultra 2 kit.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
52155039
Reads aligned (%)
97.1
Duplicates removed (%)
26.0
Number of peaks
341 (qval < 1E-05)

mm9

Number of total reads
52155039
Reads aligned (%)
96.9
Duplicates removed (%)
25.9
Number of peaks
390 (qval < 1E-05)

Base call quality data from DBCLS SRA