ExperimentSetReplicate

ExperimentSet4DNESXRJGZF3
released
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Hi-C on single positive CD4 T cells isolated from thymus

   May 2nd, 2023 at 9:13pm
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 
CD4-positive, alpha-beta thymocyte
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESXRJGZF3
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI4L9AH44
40.02m
63.553%
16.792%
19.655%
Experiment
4DNEXFNUINWB
Bio Rep 1, Tec Rep 1
in situ Hi-C on CD4-positive, alpha-beta thymocyte with MboI
File
Contact List-replicate (pairs)
4DNFIRLTJ7WN
22.21m
63.437%
16.965%
19.598%
Experiment
4DNEX3CYQOJU
Bio Rep 2, Tec Rep 1
in situ Hi-C on CD4-positive, alpha-beta thymocyte with MboI
File
Contact List-replicate (pairs)
4DNFI673CJAK
17.81m
63.698%
16.577%
19.725%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESXRJGZF3
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIMKP7L6O
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXFNUINWB
Bio Rep 1, Tec Rep 1
in situ Hi-C on CD4-positive, alpha-beta thymocyte with MboI
File
Alignments (bam)
4DNFIF5BGARB
35.05m
5.116%
11.16%
10.132%
10.227%
0.118%
Experiment
4DNEX3CYQOJU
Bio Rep 2, Tec Rep 1
in situ Hi-C on CD4-positive, alpha-beta thymocyte with MboI
File
Alignments (bam)
4DNFIS72WQ3V
27.89m
4.979%
11.179%
9.873%
10.121%
0.121%