Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SNAI2

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
keratinocytes_overexpressing SNAI2_differentiation medium_SNAI2-ChIPseq
cell type
Human keratinocytes
genotype/variation
overexpressing SNAI2
culture medium
differentiation medium
chip antibody
anti-SNAI2 (Slug (C19G7)) Rabbit mAb
chip antibody vendor
Cell Signaling

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed, lysed, and nuclei harvested and then sonicated using a Diogenode water bath sonicator TruSeq ChIP Sample Prep Kit for ChIP-Seq (illumina)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
42957160
Reads aligned (%)
86.4
Duplicates removed (%)
9.7
Number of peaks
39272 (qval < 1E-05)

hg38

Number of total reads
42957160
Reads aligned (%)
87.5
Duplicates removed (%)
9.0
Number of peaks
39462 (qval < 1E-05)

Base call quality data from DBCLS SRA