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
brain
genotype/variation
stable expression of EGFRvIII
cell line
LN229
cell type
glioblastoma
tissue
brain
antibody
input
treatment
10 uM erlotinib

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
LN229 cells were cross-linked with formaldehyde to a final concentration of 1%. ChIP samples were prepared as described previously [(Buschbeck et al. The histone variant macroH2A is an epigenetic regulator of key developmental genes. Nat Struct Mol Biol 16, 1074-1079 (2009)].Immunoprecipitations were performed using 1μg anti- macroH2A1 antibody (07-219, Millipore) or the relevant non-specific IgG (Santa Cruz). ChIP-seq libraries generation were performed according to standard protocols using BioScientific's DNA Sample Kit.

Sequencing Platform

instrument_model
Illumina HiSeq X Ten

hg38

Number of total reads
58630186
Reads aligned (%)
93.4
Duplicates removed (%)
5.4
Number of peaks
2080 (qval < 1E-05)

hg19

Number of total reads
58630186
Reads aligned (%)
92.2
Duplicates removed (%)
5.6
Number of peaks
587 (qval < 1E-05)

Base call quality data from DBCLS SRA