ExperimentSetReplicate

ExperimentSet4DNESHQUSH4D
released
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Hi-C on Treg cells with CRISPR deletion of Foxp3 - 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
4DNESHQUSH4D
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI1IZMZPK
159.12m
65.969%
17.452%
16.579%
Experiment
4DNEXFYO1OWG
Bio Rep 1, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Contact List-replicate (pairs)
4DNFI762F9LR
70.29m
66.556%
17.556%
15.888%
Experiment
4DNEXWSHOOFL
Bio Rep 2, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Contact List-replicate (pairs)
4DNFIFX2BLI9
88.84m
65.505%
17.369%
17.126%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESHQUSH4D
Multiple Experiments
File
Contact Matrix (mcool)
4DNFILOLYBSU
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXFYO1OWG
Bio Rep 1, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Alignments (bam)
4DNFIE5JYIKC
124.93m
4.654%
11.117%
17.098%
10.868%
0.104%
Experiment
4DNEXWSHOOFL
Bio Rep 2, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Alignments (bam)
4DNFIT5168FK
156.88m
4.76%
10.917%
17.417%
10.279%
0.103%