Antigen

Antigen Class

TFs and others

Antigen

TP53

Cell type

Cell type Class

Bone

Cell type

U2OS

Tissue

bone

Lineage

mesoderm

Description

osteosarcoma from the tibia of a 15 year old, J. Ponten and E. Saksela derived this line (originally 2T) in 1964 from a moderately differentiated sarcoma, viruses were not detected during co-cultivation with WI-38 cells or in CF tests against SV40, RSV or adenoviruses, mycoplasma contamination was detected and eliminated in 1972, (PMID: 6081590)

Sample

source_name

U2OS

cell line

U2OS

treated with

4GY for 2hrs

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 Lib was prepared by PCR of MuA tagmented DNA.

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

10897612

Reads aligned (%)

67.2

Duplicates removed (%)

15.5

Number of peaks

304 (qval < 1E-05)

hg19

Number of total reads

10897612

Reads aligned (%)

66.7

Duplicates removed (%)

16.6

Number of peaks

286 (qval < 1E-05)