ExperimentSetReplicate

ExperimentSet4DNESCQRIZ7D
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 2 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: DpnII

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESCQRIZ7D
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIZKO3EOE
366.72m
30.682%
9.99%
59.328%
Experiment
4DNEX6BTRW7A
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Contact List-replicate (pairs)
4DNFIGNO3VYF
179.15m
30.557%
10.53%
58.912%
Experiment
4DNEX151PVKC
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Contact List-replicate (pairs)
4DNFIOUDX17Z
187.56m
30.801%
9.474%
59.725%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESCQRIZ7D
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIBGWGJ42
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX6BTRW7A
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Alignments (bam)
4DNFIZ5G5XPT
365.51m
7.685%
13.052%
21.067%
9.181%
0.221%
Experiment
4DNEX151PVKC
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Alignments (bam)
4DNFI5FG851D
399.06m
11.639%
24.328%
17.024%
0.007%
0.154%