Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3.3

Cell type

Cell type Class
Neural
Cell type
SU-DIPG-36
NA
NA

Attributes by original data submitter

Sample

source_name
SU-DIPG36 patient-derived DIPG culture
tissue
Diffuse intrinsic pontine glioma (DIPG)
antibody
H3.3 (Millipore #09-838)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells are fixed with 1% FA. Following ChIP and washes, DNA is purified using PCI purification End-repair and A-tailing performed as described in Nagaraja 2017. Adaptor ligation and indexing with NEBNext Multiplex Oligos

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
46406934
Reads aligned (%)
96.9
Duplicates removed (%)
3.8
Number of peaks
7761 (qval < 1E-05)

hg19

Number of total reads
46406934
Reads aligned (%)
96.4
Duplicates removed (%)
4.0
Number of peaks
7337 (qval < 1E-05)

Base call quality data from DBCLS SRA