Antigen

Antigen Class

TFs and others

Antigen

TP63

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.

Sample

source_name

human Keratinocytes

genotype

wild-type

treatment strategy

Day 0 of epidermal differentiation (epidermal keratinocyte)

chip-seq antibody

p63 (Active Motif 39739)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cells were fixed in 1% formaldehyde, chromatin lysates were clarified from sonicated nuclei, and protein-DNA complexes were isolated with the indicated antibody. 60x10^6 and 10x10^6 cross-linked cells were used per assay for p63 or histone marks, respectively. DNA was quantified using Qubit (Invitrogen). Between 5 and 10 ng of pooled DNA were used for library preparation using the NEBNext kit (New England Biolabs) and Agencourt AMPure XP beads (Beckman), both according to the manufacturer's protocol.

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

42776855

Reads aligned (%)

80.3

Duplicates removed (%)

52.9

Number of peaks

5360 (qval < 1E-05)

hg19

Number of total reads

42776855

Reads aligned (%)

79.7

Duplicates removed (%)

54.1

Number of peaks

5352 (qval < 1E-05)