ExperimentSetReplicate

ExperimentSet4DNESYVSE3LK
released
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HiChIP on mature Treg cells (CD45+TCRb+CD4+CD8-Foxp3-reporter+) isolated from thymus

   June 28th, 2023 at 1:32pm
Source Publication
Foxp3 orchestrates reorganization of chromatin architecture to establish regulatory T cell identity.
Liu Z, Lee DS, et al., Nature communications 2023

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
primary cells
Sample 
Treg - thymus - Foxp3+
Experiment Type(s) 
PLAC-seq
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: Foxp3 mouse protein

15 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESYVSE3LK
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI6W26DYR
96.41m
55.919%
23.322%
20.759%
Experiment
4DNEXZP5ARGZ
Bio Rep 1, Tec Rep 1
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Contact List-replicate (pairs)
4DNFIBABR71S
6.86m
54.099%
24.96%
20.941%
Experiment
4DNEXX9TKF59
Bio Rep 1, Tec Rep 2
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Contact List-replicate (pairs)
4DNFILYB8OOG
21.95m
58.472%
20.941%
20.587%
Experiment
4DNEXBMFFEU2
Bio Rep 1, Tec Rep 3
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Contact List-replicate (pairs)
4DNFI52RDVKR
25.95m
55.913%
23.217%
20.869%
Experiment
4DNEXT3SBIIA
Bio Rep 1, Tec Rep 4
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Contact List-replicate (pairs)
4DNFI58KOZ61
13.15m
54.477%
24.99%
20.533%
Experiment
4DNEX91925JT
Bio Rep 1, Tec Rep 5
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Contact List-replicate (pairs)
4DNFI9AJNEFF
13.07m
55.36%
23.928%
20.712%
Experiment
4DNEX3IU38FT
Bio Rep 1, Tec Rep 6
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Contact List-replicate (pairs)
4DNFI8D7IK2Y
15.43m
54.806%
24.225%
20.969%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESYVSE3LK
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIW2TAJ5R
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXZP5ARGZ
Bio Rep 1, Tec Rep 1
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Alignments (bam)
4DNFIR41OEZI
211.27m
8.112%
10.304%
62.249%
16.086%
0.006%
Experiment
4DNEXX9TKF59
Bio Rep 1, Tec Rep 2
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Alignments (bam)
4DNFIXBZPAHV
113.25m
5.938%
11.959%
49.624%
13.099%
0.039%
Experiment
4DNEXBMFFEU2
Bio Rep 1, Tec Rep 3
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Alignments (bam)
4DNFIZ8SHY5S
85.99m
6.077%
12.073%
37.95%
13.723%
0.062%
Experiment
4DNEXT3SBIIA
Bio Rep 1, Tec Rep 4
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Alignments (bam)
4DNFIWY4PJLZ
91.02m
6.199%
11.635%
53.918%
13.799%
0.031%
Experiment
4DNEX91925JT
Bio Rep 1, Tec Rep 5
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Alignments (bam)
4DNFIORQXJMR
59.34m
6.091%
12.085%
46.269%
13.533%
0.048%
Experiment
4DNEX3IU38FT
Bio Rep 1, Tec Rep 6
PLAC-seq against Foxp3 mouse protein on Treg - thymus - Foxp3+
File
Alignments (bam)
4DNFIV1GMTGL
105.27m
6.249%
11.985%
53.491%
13.615%
0.032%