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_Nutlin stimulated_ChIP
cell line
MCF7
cell type
breast cancer cells
stimulated with
5μM Nutlin-3a for 24hr
chip antibody
p53 Antibody (DO-1)
chip antibody vendor
santa cruz biotechnology, inc.

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP samples were prepared following the Magna ChIP-seqTM preparation kit 5-10 ng of precipitated DNA was used to perform library preparation according to the Illumina TruSeqTM DNA Sample preparation guide. In brief, the immunoprecipitated DNA was end-repaired, A-tailed, and ligated to diluted sequencing adapters (dilution of 1/100). After PCR amplification with 15-18 cycles and gel size selection of 200–300bp fragments, the libraries were sequenced using the HiSeq 2000 (Illumina).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
91535181
Reads aligned (%)
13.0
Duplicates removed (%)
66.1
Number of peaks
937 (qval < 1E-05)

hg38

Number of total reads
91535181
Reads aligned (%)
13.6
Duplicates removed (%)
64.7
Number of peaks
696 (qval < 1E-05)

Base call quality data from DBCLS SRA