Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TP53

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
MCF7
passage
between 4-14 for all experiments
antibody
X-DO1, Santa Cruz sc-126 X
cell line
MCF7

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq, cells were crosslinked in 1% formaldehyde and quenched with glycine after 5min, and collected by scraping after washes in PBS+ protease inhibitors. ChIP seq libraries were prepared using Nugen Ovation Ultralow Library V2 systems kit

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
35041436
Reads aligned (%)
82.6
Duplicates removed (%)
13.1
Number of peaks
3838 (qval < 1E-05)

hg38

Number of total reads
35041436
Reads aligned (%)
84.2
Duplicates removed (%)
11.9
Number of peaks
3858 (qval < 1E-05)

Base call quality data from DBCLS SRA