Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Pluripotent stem cell
Cell type
iPS cells
NA
NA

Attributes by original data submitter

Sample

source_name
fibroblasts
cell type
human induced pluripotent stem cells (hiPSCs)
passages
p12
reprogramming method
Sendai Virus
clone
CL1
chip antibody
H3K4me3 (Active Motif, 39159)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNA-seq:mRNA was extracted using the miRNEASY kit from Qiagen ChIP-seq:Cells were crosslinked with formalin RNA-seq: Ovation® RNA-Seq System V2 kit (NuGEN) and NEBNext DNA Library Prep Master Mix Set for Illumina ChIP-seq: NEBNext DNA Library Prep Master Mix Set for Illumina or NEBNext® Ultra™ DNA Library Prep

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
22200849
Reads aligned (%)
97.1
Duplicates removed (%)
22.6
Number of peaks
24219 (qval < 1E-05)

hg19

Number of total reads
22200849
Reads aligned (%)
95.7
Duplicates removed (%)
23.0
Number of peaks
23682 (qval < 1E-05)

Base call quality data from DBCLS SRA