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 Transposase Fragment Genomic DNA
cell line
MCF7
chip antibody
anti-p53 antibody (DO-1, Santa Cruz Biotechnology, SC-126X, Lot:G0115)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIPseq lysates were clarified from sonicated nuclei and IPed with DO-1 anti-p53 antibody. RNA samples were extracted with Trizol, purified on Zymo columns, and 500ng polyA selected. DNA and mRNA libraries were prepared with standard illumina compatible protocols (NEBnext Kit), ATACseq and in vitro chip Lib was prepared by PCR of MuA tagmented DNA (Thermo).

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
30379330
Reads aligned (%)
0.4
Duplicates removed (%)
70.2
Number of peaks
2 (qval < 1E-05)

hg38

Number of total reads
30379330
Reads aligned (%)
0.5
Duplicates removed (%)
69.1
Number of peaks
1 (qval < 1E-05)

Base call quality data from DBCLS SRA