ExperimentSetReplicate

ExperimentSet4DNES6UJHBNW
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In situ Hi-C with DpnII on HeLa-S3 (mitotic) with 1% Formaldehyde crosslinking

   June 27th, 2020 at 6:56pm
Source Publication
Systematic evaluation of chromosome conformation capture assays.
Akgol Oksuz B, Yang L, et al., Nature methods 2021

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
HeLa-S3
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
Chemical
Assay Details 
Enzyme: DpnII

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES6UJHBNW
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIEO375WV
108.59m
47.893%
21.127%
30.98%
Experiment
4DNEXNVLEW4T
Bio Rep 1, Tec Rep 1
in situ Hi-C on HeLa-S3 with DpnII
File
Contact List-replicate (pairs)
4DNFI7DL3WXD
108.59m
47.893%
21.127%
30.98%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES6UJHBNW
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIBVZ9XTJ
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXNVLEW4T
Bio Rep 1, Tec Rep 1
in situ Hi-C on HeLa-S3 with DpnII
File
Alignments (bam)
4DNFIVYL8PMN
362.66m
15.861%
24.561%
29.629%
0.007%
0.113%