Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TP53

Cell type

Cell type Class
Epidermis
Cell type
Dermal fibroblast
NA
NA

Attributes by original data submitter

Sample

source_name
foreskin HDF, DMSO, IP
cell line
foreskin HDF
passage
p4
chip antibody
p53-DO1 (Santa Cruz, catalog# sc126, lot#K2613)
treatment
DMSO

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinking with formaldehyde, sonication with bioruptor 16 cycles 30" on 30" off. ChIP with p53-DO1 antibody. DNA extracted with phenol/chloroform. ChIP-seq library was prepared according to manifacturer's suggestion using NEBNext ChIPSEq libraryQ5 Hot Start HiFi PCR Master Mix (NEB inc)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
53984227
Reads aligned (%)
38.4
Duplicates removed (%)
55.1
Number of peaks
3295 (qval < 1E-05)

hg38

Number of total reads
53984227
Reads aligned (%)
40.1
Duplicates removed (%)
53.7
Number of peaks
3693 (qval < 1E-05)

Base call quality data from DBCLS SRA