ExperimentSetReplicate

ExperimentSet4DNESOBRUQ12
released
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iMARGI on human embryonic stem cells (H1) treated with RNase A - RNase

   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 
stem cells
Sample 
H1-hESC (Tier 1)
Experiment Type(s) 
MARGI
Modification Type 
None
Treatment Type 
Chemical
Assay Details 
Enzyme: AluI

6 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>200000)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESOBRUQ12
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI5OHG4IJ
104.17m
1.09%
87.289%
11.622%
Experiment
4DNEXVMM44ZG
Bio Rep 1, Tec Rep 1
MARGI on H1-hESC (Tier 1)
File
Contact List-replicate (pairs)
4DNFIPXAUSKM
51.55m
1.128%
85.959%
12.913%
Experiment
4DNEXDK4WMLV
Bio Rep 2, Tec Rep 1
MARGI on H1-hESC (Tier 1)
File
Contact List-replicate (pairs)
4DNFIBJHSQ2O
52.61m
1.052%
88.591%
10.357%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESOBRUQ12
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIHO3CXUQ
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000