ExperimentSetReplicate

ExperimentSet4DNESNOJ7HY7
released
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iMARGI on human embryonic stem cells (H1) - Control

   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 
None
Assay Details 
Enzyme: AluI

14 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>200000)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESNOJ7HY7
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIGDJIRV3
285.58m
12.286%
28.744%
58.97%
Experiment
4DNEXD9E1MAB
Bio Rep 1, Tec Rep 1
MARGI on H1-hESC (Tier 1)
File
Contact List-replicate (pairs)
4DNFI4XXEOJ4
144.26m
10.865%
26.169%
62.966%
Experiment
4DNEX8RSKE62
Bio Rep 2, Tec Rep 1
MARGI on H1-hESC (Tier 1)
File
Contact List-replicate (pairs)
4DNFIZZLJKSX
27.2m
12.8%
26.348%
60.851%
Experiment
4DNEXY653ER4
Bio Rep 3, Tec Rep 1
MARGI on H1-hESC (Tier 1)
File
Contact List-replicate (pairs)
4DNFICWA1X9Z
31.27m
14.763%
30.736%
54.501%
Experiment
4DNEXW3XINA3
Bio Rep 4, Tec Rep 1
MARGI on H1-hESC (Tier 1)
File
Contact List-replicate (pairs)
4DNFIC9B8VE9
17.62m
11.223%
38.634%
50.143%
File
Contact List-replicate (pairs)
4DNFIYFA5ZNQ
32.54m
14.305%
31.846%
53.849%
File
Contact List-replicate (pairs)
4DNFI85ITZ22
32.68m
14.324%
31.777%
53.9%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESNOJ7HY7
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIKWK6NSD
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000