ExperimentSetReplicate

ExperimentSet4DNES9J6QJQS
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 incubated with just digestion buffer for 4 hours 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: HindIII

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES9J6QJQS
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIFIHO4NJ
304.78m
53.662%
19.726%
26.612%
Experiment
4DNEXMXXWIG6
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with HindIII
File
Contact List-replicate (pairs)
4DNFI5OJRJER
197.15m
58.416%
17.802%
23.782%
Experiment
4DNEXIR22VYP
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with HindIII
File
Contact List-replicate (pairs)
4DNFI55PKDYG
107.62m
44.953%
23.25%
31.797%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES9J6QJQS
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIRB1EYHY
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXMXXWIG6
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with HindIII
File
Alignments (bam)
4DNFIH48P1C8
291.36m
13.631%
14.27%
4.432%
0.001%
0.097%
Experiment
4DNEXIR22VYP
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with HindIII
File
Alignments (bam)
4DNFI751Y3QE
173.98m
13.562%
14.969%
9.598%
0.01%
0.118%