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BigWig
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Peak-call (q < 1E-10)
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For hg19
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
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For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
Link Out
Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: KDM2B
wikigenes
PDBj
CellType: hESC H1
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
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