ExperimentSetReplicate

ExperimentSet4DNES9Y1GHK4
released

iMARGI on hTert-immortalized human foreskin fibroblasts

   July 1st, 2021 at 5:48pm

Assay Description  


Note: Superseding Item - 4DNES9Y1GHK4  


This experiment set supersedes 4DNESNGESP28 and 4DNESJC437VS because the replicate structure of the old set was determined to be incorrect as submitted. Experiments submitted as technical replicates were in fact biological replicates. Two of the technical replicates that corresponding to miseq QC runs have been removed and additional new sequencing replicates (i.e. new fastq files) have been added to each biological replicate experiment of the superseding replicate set. Due to the change in replicate structure new accessions have been assigned for experiments and biosamples, however, accessions for unchanged files are shared between the new and replaced replicate sets..


Experiment Set Properties  


Set Type 
Replicate
Organism 
Sample Type 
immortalized cells
Experiment Type(s) 
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: AluI

18 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>200000)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNES9Y1GHK4
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI4WXAEQN
192.73m
7.584%
58.234%
34.182%
Experiment
4DNEXNPAITRO
Bio Rep 1, Tec Rep 1
MARGI on HFFc6 (Tier 1)
File
Contact List-replicate (pairs)
4DNFIXNEBP84
19.01m
6.868%
63.439%
29.693%
File
Contact List-replicate (pairs)
4DNFI23Q2VQN
18.94m
7.17%
62.039%
30.791%
File
Contact List-replicate (pairs)
4DNFIADK4I12
19.89m
7.18%
61.942%
30.878%
File
Contact List-replicate (pairs)
4DNFIAYLAPIF
20.01m
7.236%
61.725%
31.039%
Experiment
4DNEXHKOYO1A
Bio Rep 2, Tec Rep 1
MARGI on HFFc6 (Tier 1)
File
Contact List-replicate (pairs)
4DNFIYN8SZ4V
27.35m
7.726%
56.855%
35.419%
File
Contact List-replicate (pairs)
4DNFIF33L9BN
29.08m
7.969%
54.994%
37.038%
File
Contact List-replicate (pairs)
4DNFIRTVQEG5
29.17m
7.979%
54.916%
37.105%
File
Contact List-replicate (pairs)
4DNFIFHM9CMR
29.28m
7.919%
55.304%
36.777%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES9Y1GHK4
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIDKNBPC3
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000