Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MCF-7_UNTR_H3K4me3
cell line
MCF-7
cell type
breast cancer cells
treatment
Vehicle
chip antibody
H3K4me3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
MNase digested ChIP DNA was collected from MCF7 cells cultured in phenol red free MEM, supplemented with charcoal stripped serum and containing 0.1% DMSO or 1 uM MG132 for 4 or 24H. Cells were incubated for 4 or 24 hours at 37 ºC in a humidified incubator with 5% CO2. NEXTFlex Rapid DNA-Seq Kit BIOO Scientific Cat#5144-02

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
33374545
Reads aligned (%)
98.3
Duplicates removed (%)
5.5
Number of peaks
26582 (qval < 1E-05)

hg19

Number of total reads
33374545
Reads aligned (%)
97.5
Duplicates removed (%)
6.3
Number of peaks
26174 (qval < 1E-05)

Base call quality data from DBCLS SRA