ExperimentSetReplicate

ExperimentSet4DNESKIGI9SP
released
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Hi-C on Treg cells with CRISPR deletion of Ikzf2 (Helios) enhancer - genotype CD45+CD4+CD8-CD25+Foxp3-Thy1.1+

   May 2nd, 2023 at 9:14pm
Source Publication
Foxp3 orchestrates reorganization of chromatin architecture to establish regulatory T cell identity.
Liu Z, Lee DS, et al., Nature communications 2023

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
primary cells
Sample 
Treg - thymus - Foxp3-Thy1.1 WT
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
Transient Transfection
Assay Details 
Enzyme: MboI

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESKIGI9SP
Multiple Experiments
File
Contact List-combined (pairs)
4DNFICHDWZZ4
245.7m
65.015%
17.824%
17.162%
Experiment
4DNEX5M52XBQ
Bio Rep 1, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Contact List-replicate (pairs)
4DNFI2JDJ2ON
124.97m
64.975%
17.811%
17.213%
Experiment
4DNEXMPMPE5M
Bio Rep 2, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Contact List-replicate (pairs)
4DNFIQMIZ51J
120.72m
65.055%
17.836%
17.108%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESKIGI9SP
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIPWDXR3D
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX5M52XBQ
Bio Rep 1, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Alignments (bam)
4DNFILWWRSX8
224.48m
4.519%
10.966%
17.718%
11.125%
0.101%
Experiment
4DNEXMPMPE5M
Bio Rep 2, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Alignments (bam)
4DNFI9XL3OTN
216.83m
4.645%
10.873%
17.768%
11.039%
0.1%