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

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
NextSeq 500

hg38

Number of total reads
42712897
Reads aligned (%)
97.8
Duplicates removed (%)
25.8
Number of peaks
71704 (qval < 1E-05)

hg19

Number of total reads
42712897
Reads aligned (%)
97.3
Duplicates removed (%)
26.5
Number of peaks
71355 (qval < 1E-05)

Base call quality data from DBCLS SRA