Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GRHL3

Cell type

Cell type Class
Epidermis
Cell type
NHEK
Tissue
skin
Lineage
ectoderm
Description
epidermal keratinocytes

Attributes by original data submitter

Sample

source_name
primary human neonatal keratinocytes (NHEK)
Stage
migrating
antibody
Grhl3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with the Grhl3 antibody. Sequencing libraries were generated for the samples using the NEB Next reagents and Illumina adaptors and oligos, according to the Illumina protocol for ChIP-Seq library preparation, with some modification. After adaptor ligation, PCR amplification was performed prior to size selection of the library (Schmidt, 2009). Clustering and 50-cycle single end sequencing were performed on the Illumina Hi-Seq 2000 Genome Analyzer.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
188268761
Reads aligned (%)
58.4
Duplicates removed (%)
23.2
Number of peaks
19771 (qval < 1E-05)

hg38

Number of total reads
188268761
Reads aligned (%)
60.1
Duplicates removed (%)
21.7
Number of peaks
23097 (qval < 1E-05)

Base call quality data from DBCLS SRA