ExperimentSetReplicate

ExperimentSet4DNESX75DD7R
released
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Hi-C experiments on H1-hESC 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 
stem cells
Sample 
H1-hESC (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
4DNESX75DD7R
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIHHVSC26
3.32 billion
51.001%
29.24%
19.758%
Experiment
4DNEXNQBY5YS
Bio Rep 1, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with DpnII
File
Contact List-replicate (pairs)
4DNFIJXKC55S
1.68 billion
51.546%
28.723%
19.731%
Experiment
4DNEXUBKKN5P
Bio Rep 2, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with DpnII
File
Contact List-replicate (pairs)
4DNFIS3MFEWL
1.64 billion
50.443%
29.771%
19.786%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESX75DD7R
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI82R42AD
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXNQBY5YS
Bio Rep 1, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with DpnII
File
Alignments (bam)
4DNFI6WQ3OGV
3.28 billion
14.133%
20.676%
13.908%
0.008%
0.082%
Experiment
4DNEXUBKKN5P
Bio Rep 2, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with DpnII
File
Alignments (bam)
4DNFI6C5D53T
3.21 billion
14.092%
21.113%
13.719%
0.008%
0.084%