Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TOP2B

Cell type

Cell type Class
Neural
Cell type
SNB-19
Primary Tissue
Brain
Tissue Diagnosis
Astrocytoma

Attributes by original data submitter

Sample

source_name
SNB19 glioma cells
agent
ETO
cell line
SNB19
cell type
glioma cells
chip antibody
TOP2B

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclear extracts were isolated, chromatin fragmented using Covaris sonicator in 1mL tubes for 1min. 10 ug of antibody (TOP2A Abcam, TOP2B Abcam) was incubated overnight. Washes with RIPA Buffer 4 times and once of TE with 50mM NaCl. Reversed crosslink and DNA purified for sequencing using phenol:chloroform:isoamyl alcohol.

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
17496064
Reads aligned (%)
84.2
Duplicates removed (%)
15.6
Number of peaks
51 (qval < 1E-05)

hg38

Number of total reads
17496064
Reads aligned (%)
84.5
Duplicates removed (%)
15.4
Number of peaks
51 (qval < 1E-05)

Base call quality data from DBCLS SRA