Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Epitope tags

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
Mamary gland epithelial cell
cell type
Breast adenocarcinoma
gender
female
chip antibody
HA tag (abcam: ab9110)
cell line
MCF-7
agent
doxycycline+ tamoxifen

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
MCF-7 chromatin was sonicated and PAX2 bond genomic regions were isolated by using HA tag antibody. Libraries were prepared by Norwegian sequencing centre and CRUK genomics core facility

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg38

Number of total reads
17572374
Reads aligned (%)
98.3
Duplicates removed (%)
3.9
Number of peaks
45342 (qval < 1E-05)

hg19

Number of total reads
17572374
Reads aligned (%)
97.9
Duplicates removed (%)
4.4
Number of peaks
45292 (qval < 1E-05)

Base call quality data from DBCLS SRA