Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Neural
Cell type
LN-229
Primary Tissue
Brain
Tissue Diagnosis
Glioma

Attributes by original data submitter

Sample

source_name
glioblastoma
cell line
human glioblastoma cell line LN229
treatment
1 mM glucose + 5 mM acetate
reference epigenome spike-in
Drosophila cell line S2
chip antibody
None

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Whole cell extracts were sonicated to shear the chromatin. The chromatin extracts containing DNA fragments were immunoprecipitated using antibodies against H3K27ac, H3, and IgG. Purified immunoprecipitated DNA were prepared for sequencing according to the NEBNext DNA Ultra II protocol. NEBNext DNA Ultra II kit

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
18685003
Reads aligned (%)
85.4
Duplicates removed (%)
2.9
Number of peaks
649 (qval < 1E-05)

hg19

Number of total reads
18685003
Reads aligned (%)
84.8
Duplicates removed (%)
3.8
Number of peaks
661 (qval < 1E-05)

Base call quality data from DBCLS SRA