ExperimentSetReplicate

ExperimentSet4DNES9GX32AL
released
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in situ Hi-C on DP2 thymocytes from CRE induced mice (control)

   October 18th, 2022 at 3:56pm
Source Publication
TCF-1 promotes chromatin interactions across topologically associating domains in T cell progenitors.
Wang W, Chandra A, et al., Nature immunology 2022

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
primary cells
Sample 
double-positive, alpha-beta thymocyte
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: Arima - A1, A2

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES9GX32AL
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIE4HGVUW
782.05m
57.365%
27.722%
14.913%
Experiment
4DNEX3QS8YI4
Bio Rep 1, Tec Rep 1
in situ Hi-C on double-positive, alpha-beta thymocyte with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFIXSILTTT
782.05m
57.365%
27.722%
14.913%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES9GX32AL
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI8Z5YSQ3
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX3QS8YI4
Bio Rep 1, Tec Rep 1
in situ Hi-C on double-positive, alpha-beta thymocyte with Arima - A1, A2
File
Alignments (bam)
4DNFIWGN2PLP
1.2 billion
7.595%
18.268%
7.068%
1.915%
0.087%