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 cell
cell line
E14
chip antibody
H3K27ac (MABI0309, Cosmo Bio)
genotype
Pml-/-

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, cells were fixed in 1% formaldehyde for 10 min at RT, and followed by glycine for 5 mins. Chromatin was sonicated to 200-500 bp, and immunoprecipitated with antibodies. Anti-mouse, rabbit IgG Dynabeads (Invitrogen) or StAv beads (Invitrogen) were added and incubated at 4°C. After washing the beads, beads-bound chromatin was tagemented by ChIPmentation strategy. Chromatin was eluted by reverse crosslink buffer at 65 ℃ for 12 hrs and purified with Monarch DNA Cleanup Columns. The libraries were prepared by using the Illumina Nextera DNA Library Prep Kit, and size-selected to 200-500 bp using SPRIselect beads.

Sequencing Platform

instrument_model
Illumina HiSeq 3000

mm10

Number of total reads
82499169
Reads aligned (%)
97.6
Duplicates removed (%)
26.7
Number of peaks
37125 (qval < 1E-05)

mm9

Number of total reads
82499169
Reads aligned (%)
97.5
Duplicates removed (%)
26.7
Number of peaks
36652 (qval < 1E-05)

Base call quality data from DBCLS SRA