Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Epidermis
Cell type
Foreskin
MeSH Description
The double-layered skin fold that covers the GLANS PENIS, the head of the penis.

Attributes by original data submitter

Sample

source_name
Keratinocytes
cell type
Primary human foreskin keratinocytes
hours of culture
6
passages
4
treatment
Vehicle
chip antibody
H3K4me3 (Abcam8580)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked, harvested and stored at -80 degrees. Then nuclei were isolated, DNA sonicated and ChIP was performed. Then DNA was isolated using qiaquick PCR purification kit. Libraries were prepared according to the standard KAPA Biosystems kit and DNA was size-selected (300-400bp) with E-Gel® iBase™ Power System (Invitrogen)

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
24922163
Reads aligned (%)
90.8
Duplicates removed (%)
22.0
Number of peaks
19545 (qval < 1E-05)

hg19

Number of total reads
24922163
Reads aligned (%)
90.4
Duplicates removed (%)
22.2
Number of peaks
19407 (qval < 1E-05)

Base call quality data from DBCLS SRA