Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Digestive tract
Cell type
Hs 1.Int
Primary Tissue
Intestine Small
Site of Extraction
Embryo
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
Gastric Cancer Line
tissue type
Hs 1.Int
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 2000

hg38

Number of total reads
37088221
Reads aligned (%)
92.0
Duplicates removed (%)
54.7
Number of peaks
23761 (qval < 1E-05)

hg19

Number of total reads
37088221
Reads aligned (%)
91.2
Duplicates removed (%)
55.4
Number of peaks
23547 (qval < 1E-05)

Base call quality data from DBCLS SRA