Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TP53

Cell type

Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
Colon carcinoma cells
genotype
WT
drug treatment
NA
cell line
HCT116
cell type
colon carcinoma
antibody
Anti-p53 (clone DO1)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Treated cells were crosslinked using 1% methanol-free formaldehyde for 10minutes at room temperature. Isolated nuclei were then sonicated to create sheared DNA of an average size of 600-800bp. DNA:protein complexes were then used for immunoprecipitation with anti-p53 (DO1) antibodies. Immunoprecipitated DNA was then used for multiple PCR reactions using specific barcoded primers to amplify a 150bp region of the CCNG1 enhancer. The resulting DNA product was used to construct an Illumina-compatible DNA sequencing library using the NEBNext Ultra II DNA Library Kit.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
11701104
Reads aligned (%)
0.3
Duplicates removed (%)
99.6
Number of peaks
0 (qval < 1E-05)

hg38

Number of total reads
11701104
Reads aligned (%)
0.3
Duplicates removed (%)
99.6
Number of peaks
0 (qval < 1E-05)

Base call quality data from DBCLS SRA