Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Digestive tract
Cell type
HFE145
NA
NA

Attributes by original data submitter

Sample

source_name
Gastric Cancer Line
tissue type
HFE-145
chip antibody
H3K4Me3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Pelleted cells and pulverized tissues were lysed in 100 µl 1% SDS lysis buffer and sonicated to 300-500bp using a Bioruptor (Diagenode). ChIPs were performed using the following antibodies: H3K4me3 (07-473, Millipore); H3K4me1 (ab8895, Abcam); H3K27ac (ab4729, Abcam); H3K36me3 (ab9050, Abcam); H3K27me3 (07-449, Millipore),EZH2 (# 5246, Cell Signaling) using same chromatin preparation.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
25350850
Reads aligned (%)
91.7
Duplicates removed (%)
21.5
Number of peaks
1540 (qval < 1E-05)

hg19

Number of total reads
25350850
Reads aligned (%)
91.2
Duplicates removed (%)
21.7
Number of peaks
1305 (qval < 1E-05)

Base call quality data from DBCLS SRA