ExperimentSetReplicate

ExperimentSet4DNES1E3ET5M
released
View JSON

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: HindIII

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES1E3ET5M
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI6729TTH
119.82m
45.391%
20.573%
34.036%
Experiment
4DNEX62ETKRT
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with HindIII
File
Contact List-replicate (pairs)
4DNFI9AN383H
119.82m
45.391%
20.573%
34.036%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES1E3ET5M
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIEG3TBMC
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX62ETKRT
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 (Tier 2) with HindIII
File
Alignments (bam)
4DNFIBJ7CL8N
181.08m
12.861%
15.256%
5.705%
0.009%
0.134%