ExperimentSetReplicate

ExperimentSet4DNES4ZVGG33
released
View JSON

Hi-C on Treg cells with CRISPR control - 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
4DNES4ZVGG33
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIF6UNRKQ
232.74m
65.389%
17.394%
17.217%
Experiment
4DNEX1ZOPLLG
Bio Rep 1, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Contact List-replicate (pairs)
4DNFIYKXEYVF
125.59m
65.372%
17.474%
17.154%
Experiment
4DNEXJZUYSXF
Bio Rep 2, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Contact List-replicate (pairs)
4DNFIMTDGILM
107.16m
65.408%
17.301%
17.291%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES4ZVGG33
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI774Q3YL
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX1ZOPLLG
Bio Rep 1, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Alignments (bam)
4DNFIOKO9QLD
223.18m
4.556%
11.045%
17.047%
11.08%
0.102%
Experiment
4DNEXJZUYSXF
Bio Rep 2, Tec Rep 1
in situ Hi-C on Treg - thymus - Foxp3-Thy1.1 WT with MboI
File
Alignments (bam)
4DNFIF9W3VA2
187.74m
4.524%
11.097%
16.697%
10.604%
0.105%