Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

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
uninfected control cell
chip antibody
H3K4me3_ChIP (Active Motif, 39159, lot 25817005)

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
19663526
Reads aligned (%)
96.3
Duplicates removed (%)
14.2
Number of peaks
19352 (qval < 1E-05)

hg19

Number of total reads
19663526
Reads aligned (%)
95.9
Duplicates removed (%)
14.8
Number of peaks
20043 (qval < 1E-05)

Base call quality data from DBCLS SRA