Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K9me3

Cell type

Cell type Class
Digestive tract
Cell type
Gastric epithelial cells
NA
NA

Attributes by original data submitter

Sample

source_name
Normal gastric epithelial cell
cell type
EBV infected cell
chip antibody
H3K9me3_ChIP (abcam, ab8895, lot GR114265-2)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, sonicated nuclear fraction was incubated with each antibody and histone-DNA complexes were isolated. ChIP-seq libraries were prepared using KAPA Hyper Prep Kit (KAPA Biosystems) following the manufacturer's protocol.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
21534732
Reads aligned (%)
96.6
Duplicates removed (%)
6.9
Number of peaks
1470 (qval < 1E-05)

hg19

Number of total reads
21534732
Reads aligned (%)
94.9
Duplicates removed (%)
9.7
Number of peaks
1263 (qval < 1E-05)

Base call quality data from DBCLS SRA