Antigen

Antigen Class

TFs and others

Antigen

TP53

Cell type

Cell type Class

Digestive tract

Cell type

SW 480

Primary Tissue

unresolved

Tissue Diagnosis

unresolved

Sample

source_name

SW480 Cells

cell line

SW480

cell type

Colon Cancer Cells

genotype/variation

Human Colon Cancer Cell Line, stable p53 knockdown

treatment

TNF-a

chip antibody

anti-p53 (FL393, sc6243)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For ChIP, cells were crosslinked, lysates from sonicated nuclei were prepared, and protein-DNA complexes were immunoprecipitated with corresponding antibodies. Please refer to the methods section for detailed protocols. ChIP-seq libraries were prepared according to Illumina's ChIP Truseq protocol. Briefly, ChIP DNA was end-repaired and adaptors were ligated to the ends of the DNA fragments. Adaptor-ligated ChIP DNA fragments with average size of 350 bp were used to construct libraries and single-end sequenced on Illumina HiSeq 4000.

Sequencing Platform

instrument_model

Illumina HiSeq 4000

hg38

Number of total reads

58251154

Reads aligned (%)

84.7

Duplicates removed (%)

13.3

Number of peaks

11632 (qval < 1E-05)

hg19

Number of total reads

58251154

Reads aligned (%)

84.0

Duplicates removed (%)

14.1

Number of peaks

11606 (qval < 1E-05)