Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Breast
Cell type
AU565
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
AU565 cells, H3K4me3 ChIP
cell line
AU565
cell type
Breast cancer cell line
treatment
Control
chip antibody
H3K4me3 (Abcam, ab8580, lot GR1902371-1 and GR224370-1)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were prepared for sequencing using standard Illumina protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
40768175
Reads aligned (%)
95.5
Duplicates removed (%)
24.3
Number of peaks
43219 (qval < 1E-05)

hg19

Number of total reads
40768175
Reads aligned (%)
95.3
Duplicates removed (%)
24.6
Number of peaks
42884 (qval < 1E-05)

Base call quality data from DBCLS SRA