ExperimentSetReplicate

ExperimentSet4DNESZUWCRVN
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 1 hour 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
4DNESZUWCRVN
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI3TL2OUL
123.58m
35.373%
11.22%
53.406%
Experiment
4DNEXTEGJNAT
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Contact List-replicate (pairs)
4DNFI4OTEXC7
97.2m
34.599%
11.006%
54.394%
Experiment
4DNEXMBJ6YSK
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Contact List-replicate (pairs)
4DNFIB8E992N
26.38m
38.226%
12.009%
49.765%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESZUWCRVN
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIPBKVIZY
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXTEGJNAT
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Alignments (bam)
4DNFI2KIHE92
369.93m
13.506%
12.215%
37.432%
10.571%
0.121%
Experiment
4DNEXMBJ6YSK
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Alignments (bam)
4DNFI2WID7C4
47.5m
12.679%
23.784%
8.0%
0.006%
0.161%