Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
KDM2B

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H1
NA
NA

Attributes by original data submitter

Sample

source_name
Cultured Human Embryonic Stem Cells
cell type
H1 hESC
genotype
RNF2-R
media
mTeSR (StemCell Technolgies)
media supplement
NA
antibody
KDM2B (rabbit A) (Beguelin et al, 2016, Gearhart et al, 2006)
fixation strategy
ethylene glycol bis(succinimidyl succinate) + formaldehyde
sonication strategy
Covaris S220

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNAeasy Micro Kit (Qiagen) was used to prepare RNA from the samples described above. TruSeq (Illumina) RNA libraries were prepared from the recovered RNA.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
28933126
Reads aligned (%)
88.2
Duplicates removed (%)
9.4
Number of peaks
36986 (qval < 1E-05)

hg38

Number of total reads
28933126
Reads aligned (%)
89.6
Duplicates removed (%)
8.5
Number of peaks
37153 (qval < 1E-05)

Base call quality data from DBCLS SRA