ExperimentSetReplicate

ExperimentSet4DNESC23ZYOF
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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 HindIII 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: DpnII

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESC23ZYOF
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIO6XNYTP
186.96m
41.334%
11.623%
47.043%
Experiment
4DNEXVAWDACQ
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Contact List-replicate (pairs)
4DNFIL1BNS9I
33.57k
42.783%
10.702%
46.515%
Experiment
4DNEXVBNB1GL
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Contact List-replicate (pairs)
4DNFISCFC9FL
186.92m
41.333%
11.623%
47.043%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESC23ZYOF
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIKI77KEM
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXVAWDACQ
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Alignments (bam)
4DNFI6WCR3EX
50.12k
8.627%
12.727%
0.06%
11.602%
0.253%
Experiment
4DNEXVBNB1GL
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with DpnII
File
Alignments (bam)
4DNFI7F7CCCS
392.25m
12.378%
24.268%
15.695%
0.007%
0.138%