ExperimentSetReplicate

ExperimentSet4DNESNMAAN97
released
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Hi-C experiments on HFFc6 crosslinked with both FA and DSG, digested with DpnII.

   June 24th, 2020 at 8:17pm
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 
HFFc6 (Tier 1)
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
4DNESNMAAN97
Multiple Experiments
File
Contact List-combined (pairs)
4DNFINFTFBN2
2.76 billion
51.628%
37.992%
10.38%
Experiment
4DNEXBO6JSO9
Bio Rep 1, Tec Rep 1
in situ Hi-C on HFFc6 (Tier 1) with DpnII
File
Contact List-replicate (pairs)
4DNFIYL4411E
1.31 billion
53.45%
35.214%
11.337%
Experiment
4DNEXQBYXQKH
Bio Rep 2, Tec Rep 1
in situ Hi-C on HFFc6 (Tier 1) with DpnII
File
Contact List-replicate (pairs)
4DNFIIQGAGKJ
1.46 billion
49.995%
40.483%
9.522%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESNMAAN97
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIAVXXO55
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXBO6JSO9
Bio Rep 1, Tec Rep 1
in situ Hi-C on HFFc6 (Tier 1) with DpnII
File
Alignments (bam)
4DNFIAPLFGDB
2.58 billion
14.36%
20.474%
14.478%
0.004%
0.048%
Experiment
4DNEXQBYXQKH
Bio Rep 2, Tec Rep 1
in situ Hi-C on HFFc6 (Tier 1) with DpnII
File
Alignments (bam)
4DNFIHTD3O3K
2.86 billion
15.575%
21.123%
12.248%
0.006%
0.056%