ExperimentSetReplicate

ExperimentSet4DNESC487Q9T
released
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in situ Hi-C on Scid.adh cell line (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 
immortalized cells
Sample 
scid.adh
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
4DNESC487Q9T
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIX6PSB9F
756.58m
59.599%
31.831%
8.57%
Experiment
4DNEXQBL31PH
Bio Rep 1, Tec Rep 1
in situ Hi-C on scid.adh with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFIM8F2JCL
756.58m
59.599%
31.831%
8.57%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESC487Q9T
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI3RFZLZ5
2000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXQBL31PH
Bio Rep 1, Tec Rep 1
in situ Hi-C on scid.adh with Arima - A1, A2
File
Alignments (bam)
4DNFI3X2MVCQ
1.21 billion
10.14%
20.368%
5.625%
1.433%
0.064%