Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Breast
Cell type
HMEC
Primary Tissue
Breast
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
Human Mammary Epithelial Cells
gender
female
cell line
HMEC
cell type
Normal Cells
antibody
Abcam; ab8580

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Phenol/chlorophrom extraction was used for gDNA isolation. Standard Illumina protocols are followed. ChIP-seq: Bioo Scientific NEXTflex kit is used (Catalog: 514120, 48 reactions) ChIP-seq: Libraries were prepared according to the standard Illumina protocol and sequenced with the HiSeq2500 system. Single end sequencing was carried out to obtain around 25-150 million (M), 100bp long reads per sample.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
81783133
Reads aligned (%)
97.2
Duplicates removed (%)
53.6
Number of peaks
23018 (qval < 1E-05)

hg19

Number of total reads
81783133
Reads aligned (%)
96.6
Duplicates removed (%)
55.0
Number of peaks
21694 (qval < 1E-05)

Base call quality data from DBCLS SRA