Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC derived epidermal cells
NA
NA

Attributes by original data submitter

Sample

source_name
TetO-TFAP2C hESC differentiation at Day7 with Dox
cell type
early epidemal differentiated human emryonic stem cell (hESC)
genotype
TetO-TFAP2C
treatment and stage
early differentiaiton with Dox for 7 days
chip antibody
H3K4m3; Active Motif Cat #39159

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were prepared following the NEBNext protocol (NEBNext ChIP-Seq Library Prep kit Cat #E6240S/L)

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
141507382
Reads aligned (%)
90.0
Duplicates removed (%)
54.9
Number of peaks
28277 (qval < 1E-05)

hg19

Number of total reads
141507382
Reads aligned (%)
89.4
Duplicates removed (%)
56.0
Number of peaks
27933 (qval < 1E-05)

Base call quality data from DBCLS SRA