Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3.3

Cell type

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

Attributes by original data submitter

Sample

source_name
Line XIII DIPG
antibody
H3.3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibodies to H3K27me3 (Cell Signaling C36B11) or H3.3 (Millipore #09-838). Libraries were prepared with the Nextera library prep kit Libraries were sequenced on the NovaSeq machine with 150 base paired-end sequencing

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg38

Number of total reads
167737434
Reads aligned (%)
96.1
Duplicates removed (%)
23.9
Number of peaks
48317 (qval < 1E-05)

hg19

Number of total reads
167737434
Reads aligned (%)
95.5
Duplicates removed (%)
24.2
Number of peaks
46638 (qval < 1E-05)

Base call quality data from DBCLS SRA