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
cell type
U2OS
cell type
osteosarcoma
treatment
0.1% DMSO for 24 hr and ChIP with p53 (control for Nutlin-treated cells)
chip antibody
p53 DO-1 (Santa Cruz, sc-126)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Treated cells were crosslinked with 1% formaldehyde then cells were lysed and nuclei were collected. Chromatin was sheared and immunoprecipitated with p53 DO-1 Ab overnight. Input DNA and p53 ChIP-DNA were reverse crosslinked and purified. Libraries were prepared the using the Illumina ChIP-seq DNA Sample Prep Kit as per manufacturer's instructions

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg19

Number of total reads
39717260
Reads aligned (%)
92.4
Duplicates removed (%)
31.6
Number of peaks
2512 (qval < 1E-05)

hg38

Number of total reads
39717260
Reads aligned (%)
93.3
Duplicates removed (%)
30.0
Number of peaks
2513 (qval < 1E-05)

Base call quality data from DBCLS SRA