Sample information curated by ChIP-Atlas

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)

Attributes by original data submitter

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

hg19

Number of total reads
10897612
Reads aligned (%)
66.7
Duplicates removed (%)
16.6
Number of peaks
286 (qval < 1E-05)

hg38

Number of total reads
10897612
Reads aligned (%)
67.2
Duplicates removed (%)
15.5
Number of peaks
304 (qval < 1E-05)

Base call quality data from DBCLS SRA