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
cell line
MCF7
cell type
breast cancer cell line
p53 mutation status
p53 WT
transfected with
None
chip antibody
Anti-p53, clone DO-1
chip antibody vendor
MABE327

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, cells were crosslinked with formaldehyde (1% final) for 10min at room temperature, and harvested for sonication. Nuclei were extracted and chromatin was sheared to an average size of 200bp using a Diagenode Bioruptor. Sequencing libraries for ChIP-seq were constructd using the NEBNext Ultra kit as per manufacturer's recommended instructions

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
59810856
Reads aligned (%)
93.5
Duplicates removed (%)
4.9
Number of peaks
789 (qval < 1E-05)

hg38

Number of total reads
59810856
Reads aligned (%)
95.6
Duplicates removed (%)
3.5
Number of peaks
829 (qval < 1E-05)

Base call quality data from DBCLS SRA