SRX3256875
GSM2805880: KDM2B ChIP from RNF2-R Cells (plus dox); Homo sapiens; ChIP-Seq

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
1micro/ml Doxycyclin
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

Where can I get the processing logs?

Read processing pipeline log

hg19

Number of total reads
30751385
Reads aligned (%)
85.0
Duplicates removed (%)
11.8
Number of peaks
37923 (qval < 1E-05)

hg38

Number of total reads
30751385
Reads aligned (%)
86.4
Duplicates removed (%)
10.7
Number of peaks
37968 (qval < 1E-05)

Base call quality data from DBCLS SRA