ExperimentSetReplicate

ExperimentSet4DNESGRI8A8N
released
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iMARGI on human embryonic stem cells (H1) treated with ammonium acetate - NH4OAc

   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

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>200000)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESGRI8A8N
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIVECN37C
202.54m
9.995%
29.736%
60.268%
Experiment
4DNEX2DX2EWN
Bio Rep 1, Tec Rep 1
MARGI on H1-hESC (Tier 1)
File
Contact List-replicate (pairs)
4DNFIHTYKLU4
49.31m
9.771%
25.92%
64.309%
File
Contact List-replicate (pairs)
4DNFI1G35B7T
49.68m
9.782%
25.865%
64.352%
Experiment
4DNEX9TH19DR
Bio Rep 2, Tec Rep 1
MARGI on H1-hESC (Tier 1)
File
Contact List-replicate (pairs)
4DNFILIH8TTC
51.34m
10.197%
33.449%
56.354%
File
Contact List-replicate (pairs)
4DNFIKTRLKYW
52.21m
10.211%
33.375%
56.415%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESGRI8A8N
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIP7GXPE2
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000