ExperimentSetReplicate

ExperimentSet4DNESS4DPTVF
released
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in situ Hi-C on mitotically synchronized DMSO treated hTert-RPE1 FKBP12F36V-NIPBL clone D7- 30 min post release

   October 17th, 2024 at 9:16pm
Source Publication
Genome-wide in vivo dynamics of cohesin-mediated loop extrusion and its role in transcription activation
Popay TM, Pant A, et al., bioRxiv 2024

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
dTAG-NIPBL hTERT-RPE-1 - clone D7
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
Chemical
Assay Details 
Enzyme: Arima - A1, A2

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESS4DPTVF
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIRL7RAU9
563.3m
74.331%
22.686%
2.983%
Experiment
4DNEXWCRV736
Bio Rep 1, Tec Rep 1
in situ Hi-C on dTAG-NIPBL hTERT-RPE-1 - clone D7 with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFI3HJ13AW
347.02m
73.045%
23.196%
3.759%
Experiment
4DNEX1HJPUED
Bio Rep 2, Tec Rep 1
in situ Hi-C on dTAG-NIPBL hTERT-RPE-1 - clone D7 with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFIQP1NWXA
259.69m
75.716%
21.078%
3.207%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESS4DPTVF
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIDPSS414
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000