Antigen

Antigen Class

TFs and others

Antigen

SMC1A

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

Primary Epidermal Keratinocyte - Differentiation Day 0

cell type

primary epidermal keratinocyte

differentiation state

Undifferentiated (Day 0)

individual

Donor1

Sex

male

chip antibody

Smc1a (Bethyl, catalog# A300-055A, lot# A300-055-5)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cells were crosslinked with 1% formaldehyde for 10 minutes, then quenched with 0.125M glycine for 5 minutes. Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with an antibody. NEB Next ChIP-seq library prep kit was used.

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

40111577

Reads aligned (%)

57.0

Duplicates removed (%)

5.5

Number of peaks

1169 (qval < 1E-05)

hg19

Number of total reads

40111577

Reads aligned (%)

56.6

Duplicates removed (%)

6.7

Number of peaks

1056 (qval < 1E-05)