ExperimentSetReplicate

ExperimentSet4DNESFM66XDL
released
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These are biological replicate in which we performed Liquid chromatin Hi-C on K652 cells. Nuclei were purified then were digested with DpnII for 5 mins before performing Hi-C 2.0

   June 4th, 2019 at 2:11pm
Source Publication
Liquid chromatin Hi-C characterizes compartment-dependent chromatin interaction dynamics.
Belaghzal H, Borrman T, et al., Nature genetics 2021

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
K562 (Tier 2)
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DpnII

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESFM66XDL
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIL1GAMK2
318.34m
45.241%
11.969%
42.789%
Experiment
4DNEXKQ6AK67
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Contact List-replicate (pairs)
4DNFIP7731QY
125.31m
46.375%
13.13%
40.494%
Experiment
4DNEXX1PZRJP
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Contact List-replicate (pairs)
4DNFIC4PC9O3
193.03m
44.505%
11.216%
44.279%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESFM66XDL
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIRILXQ67
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXKQ6AK67
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Alignments (bam)
4DNFIHAZWLDM
356.63m
8.7%
13.302%
32.648%
10.214%
0.14%
Experiment
4DNEXX1PZRJP
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Alignments (bam)
4DNFI9LJUKHY
399.94m
11.301%
24.081%
16.347%
0.007%
0.134%