ExperimentSetReplicate

ExperimentSet4DNESXXKSOZ8
released
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Hi-C on CD8- CD4- double negative 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 
double-negative 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
4DNESXXKSOZ8
Multiple Experiments
File
Contact List-combined (pairs)
4DNFINT8X8Q2
42.29m
66.298%
16.872%
16.831%
Experiment
4DNEXNDE5T4V
Bio Rep 1, Tec Rep 1
in situ Hi-C on double-negative alpha beta thymocyte with MboI
File
Contact List-replicate (pairs)
4DNFIBW3DSBZ
20.92m
65.98%
17.116%
16.903%
Experiment
4DNEXPM578BH
Bio Rep 2, Tec Rep 1
in situ Hi-C on double-negative alpha beta thymocyte with MboI
File
Contact List-replicate (pairs)
4DNFI8SG6112
21.37m
66.608%
16.632%
16.76%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESXXKSOZ8
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIXW5D7EE
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXNDE5T4V
Bio Rep 1, Tec Rep 1
in situ Hi-C on double-negative alpha beta thymocyte with MboI
File
Alignments (bam)
4DNFICMXONEJ
32.17m
5.23%
11.073%
8.433%
10.237%
0.117%
Experiment
4DNEXPM578BH
Bio Rep 2, Tec Rep 1
in situ Hi-C on double-negative alpha beta thymocyte with MboI
File
Alignments (bam)
4DNFIAS9OEJK
33.08m
5.022%
11.059%
9.937%
9.357%
0.111%