Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

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
cell line
R1 ESC
strain
129SV
genotype
wild-type
antibody
H3K27ac (Active Motif 39133)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei were extracted and chromatin sonicated to 250-500bp with a Covaris sonicator and IP was performed with antibody as indicated overnight. ChIP DNA, input DNA and cDNA were subject to end repair, A-tailing, adaptor ligation and cleavage with USER enzyme, followed by size selection of 250-500 bp and amplification with NEBNext sequencing primers

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
44951266
Reads aligned (%)
97.0
Duplicates removed (%)
16.8
Number of peaks
50631 (qval < 1E-05)

mm9

Number of total reads
44951266
Reads aligned (%)
96.8
Duplicates removed (%)
16.8
Number of peaks
50638 (qval < 1E-05)

Base call quality data from DBCLS SRA