Antigen

Antigen Class

ATAC-Seq

Antigen

ATAC-Seq

Cell type

Cell type Class

Epidermis

Cell type

Epidermis

MeSH Description

The external, nonvascular layer of the skin. It is made up, from within outward, of five layers of EPITHELIUM: (1) basal layer (stratum basale epidermidis); (2) spinous layer (stratum spinosum epidermidis); (3) granular layer (stratum granulosum epidermidis); (4) clear layer (stratum lucidum epidermidis); and (5) horny layer (stratum corneum epidermidis).

Sample

source_name

Epidermis

age

Embryonic day 9

tissue

Epidermis

genotype

{delta}Np63 -GFP KI-Het

Sequenced DNA Library

library_strategy

ATAC-seq

library_source

GENOMIC

library_selection

other

library_construction_protocol

Back skin is dissected and treated with Collagenase and Trypsin to achieve single cell suspension. Epidermal cells isolated by FACS of GFP positive cells. Dermal cells isolated by FACS through CD140a antibody staining. SMARTer Directional cDNA Library Construction Kit and NEBNext® Ultra™ Directional RNA Library Prep Kit ; ATAC-seq, protocol as described in Buenrostro et al., Nat Methods, 2013; ChiP-seq, protocol described in Wang et al., RNA, 2013.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

50120420

Reads aligned (%)

63.3

Duplicates removed (%)

89.6

Number of peaks

5876 (qval < 1E-05)

mm9

Number of total reads

50120420

Reads aligned (%)

63.3

Duplicates removed (%)

89.7

Number of peaks

5846 (qval < 1E-05)