ExperimentSetReplicate

ExperimentSet4DNESRJ8KV4Q
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Hi-C on h1ESC cells with DpnII replicates

   September 15th, 2017 at 3:38pm
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
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DpnII

12 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESRJ8KV4Q
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIXKAVZL3
414.93m
27.451%
17.157%
55.392%
Experiment
4DNEXCX13ZF9
Bio Rep 1, Tec Rep 1
in situ Hi-C on H1-hESC with DpnII
File
Contact List-replicate (pairs)
4DNFIT5LC9RX
80.4m
25.82%
13.443%
60.737%
Experiment
4DNEXZEUZJH7
Bio Rep 1, Tec Rep 2
in situ Hi-C on H1-hESC with DpnII
File
Contact List-replicate (pairs)
4DNFIV92ZW1J
157.55m
25.902%
13.192%
60.906%
Experiment
4DNEXSUMVBKJ
Bio Rep 2, Tec Rep 1
in situ Hi-C on H1-hESC with DpnII
File
Contact List-replicate (pairs)
4DNFILOL3RLR
176.98m
29.571%
22.374%
48.054%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESRJ8KV4Q
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI7JNCNFB
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXCX13ZF9
Bio Rep 1, Tec Rep 1
in situ Hi-C on H1-hESC with DpnII
File
Alignments (bam)
4DNFIJUC7GWS
234.81m
12.282%
24.177%
29.293%
0.007%
0.169%
Experiment
4DNEXZEUZJH7
Bio Rep 1, Tec Rep 2
in situ Hi-C on H1-hESC with DpnII
File
Alignments (bam)
4DNFIFCKCLSG
373.38m
12.247%
24.084%
21.469%
0.006%
0.209%
Experiment
4DNEXSUMVBKJ
Bio Rep 2, Tec Rep 1
in situ Hi-C on H1-hESC with DpnII
File
Alignments (bam)
4DNFISCPFQP8
367.34m
15.604%
22.24%
13.973%
0.005%
0.141%