ExperimentSetReplicate

ExperimentSet4DNESCMQDOWS
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In situ Hi-C with DpnII on HeLa-S3 (G1 phase) with 1% Formaldehyde and 3mM DSG 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
4DNESCMQDOWS
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIBX2ETW7
136.1m
44.735%
42.746%
12.519%
Experiment
4DNEXQGIFW97
Bio Rep 1, Tec Rep 1
in situ Hi-C on HeLa-S3 with DpnII
File
Contact List-replicate (pairs)
4DNFIXGODU2C
136.1m
44.735%
42.746%
12.519%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESCMQDOWS
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIQAFWFZZ
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXQGIFW97
Bio Rep 1, Tec Rep 1
in situ Hi-C on HeLa-S3 with DpnII
File
Alignments (bam)
4DNFINIIUNJ9
357.54m
17.126%
21.894%
22.908%
0.005%
0.046%