Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TP53

Cell type

Cell type Class
Epidermis
Cell type
Keratinocytes
MeSH Description
Epidermal cells which synthesize keratin and undergo characteristic changes as they move upward from the basal layers of the epidermis to the cornified (horny) layer of the skin. Successive stages of differentiation of the keratinocytes forming the epidermal layers are basal cell, spinous or prickle cell, and the granular cell.

Attributes by original data submitter

Sample

source_name
Human neonatal foreskin keratinocytes
chip antibody
p53(DO1)
agent
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
p63 or p53 bound DNA was enriched for by chromatin immunoprecipitation .End repaired sequencing libraries were prepared from two independent biological replicatesand matched input control using NEBNext sample preparation kit (New England biolabs) according to manufacturers instructions. The resulting adapter ligated DNA was subjected to 16 cycles of adapter mediated pcr using Herculase II Fusion DNA Polymerase (Agilent). The resulting libraries were size fractionated in a 2% agarose gel and purified to obtain 2-400Bp fragments. Each library was validated using an agilent 2100 bioanalyser and sequenced on the Illumina GAII sequencer according to manufacturers instructions.

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg19

Number of total reads
20800307
Reads aligned (%)
59.8
Duplicates removed (%)
11.3
Number of peaks
1470 (qval < 1E-05)

hg38

Number of total reads
20800307
Reads aligned (%)
61.0
Duplicates removed (%)
10.3
Number of peaks
1819 (qval < 1E-05)

Base call quality data from DBCLS SRA