ExperimentSetReplicate

ExperimentSet4DNESIKCVASO
released
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iMARGI on chronic myelogenous leukemia lymphoblasts (K562)

   July 1st, 2021 at 5:48pm
Source Publication
Genome-wide analysis of the interplay between chromatin-associated RNA and 3D genome organization in human cells.
Calandrelli R, Wen X, et al., Nature communications 2023

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
K562 (Tier 2)
Experiment Type(s) 
MARGI
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: AluI

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>200000)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESIKCVASO
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIVIHUHOE
248.41m
16.609%
22.61%
60.781%
Experiment
4DNEXMAFL7MZ
Bio Rep 1, Tec Rep 1
MARGI on K562 (Tier 2)
File
Contact List-replicate (pairs)
4DNFI9SZVQU5
57.25m
16.452%
23.558%
59.99%
File
Contact List-replicate (pairs)
4DNFIOE1EASE
60.37m
16.482%
23.495%
60.023%
Experiment
4DNEXFDN2NC9
Bio Rep 2, Tec Rep 1
MARGI on K562 (Tier 2)
File
Contact List-replicate (pairs)
4DNFIG1V7TCM
65.3m
16.722%
21.827%
61.451%
File
Contact List-replicate (pairs)
4DNFISX1N9YZ
65.5m
16.75%
21.748%
61.503%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESIKCVASO
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIOHY9ZX7
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000