ExperimentSetReplicate

ExperimentSet4DNESH3K71GF
released
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Replicates of H3K4me3 ChIP-seq on Sox2 tagged F123 ES cells with 4 CTCF binding sites introduced between Sox2 and its Super Enhancer

   August 13th, 2020 at 6:16pm
Source Publication
CTCF mediates dosage- and sequence-context-dependent transcriptional insulation by forming local chromatin domains.
Huang H, Zhu Q, et al., Nature genetics 2021

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
F123-CASTx129 with Sox2 tags and RMCE site between Sox2 and its SE
Experiment Type(s) 
ChIP-seq
Modification Type 
RMCE
Treatment Type 
None
Assay Details 
Target: H3K4me3

5 Processed Files

Quality Metrics

Experiment
For File
Nonredundant Read Fraction (NRF)
PCR Bottleneck Coefficient (PBC)
Filtered & Deduped Reads
Report
Details
Experiment
4DNEX1YVD72A
Bio Rep 1, Tec Rep 1
ChIP-seq against H3K4me3 on F123-CASTx129 with Sox2 tags and RMCE site between Sox2 and its SE
File
Read Positions (bed)
4DNFICLZGBGQ
0.88
0.88
18.52m
Experiment
4DNEX99VLR1C
Bio Rep 2, Tec Rep 1
ChIP-seq against H3K4me3 on F123-CASTx129 with Sox2 tags and RMCE site between Sox2 and its SE
File
Read Positions (bed)
4DNFIC7IYR3K
0.88
0.88
23.72m
Experiment
For File
Optimal Peaks
Rescue Ratio
Self Consistency Ratio
Fraction of Reads in Peaks
Report
Details
From Multiple Experiments
4DNESH3K71GF
Multiple Experiments
File
Peaks (bigbed)
4DNFIXNPY45Y
89.43k
1.01
1.03
0.85