ExperimentSetReplicate

ExperimentSet4DNESVKLYDOH
released
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Dilution Hi-C experiment on GM19239

   April 28th, 2017 at 5:46pm
Source Publication
Common DNA sequence variation influences 3-dimensional conformation of the human genome.
Gorkin DU, Qiu Y, et al., Genome biology 2019

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
GM19239
Experiment Type(s) 
Dilution Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: HindIII

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESVKLYDOH
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIXIFOEV9
468.57m
45.134%
21.575%
33.291%
Experiment
4DNEXCFHD2J4
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM19239 with HindIII
File
Contact List-replicate (pairs)
4DNFI8JEIBV6
172.31m
39.239%
24.114%
36.647%
Experiment
4DNEXMKYVEBJ
Bio Rep 2, Tec Rep 1
Dilution Hi-C on GM19239 with HindIII
File
Contact List-replicate (pairs)
4DNFII6CJBM5
296.26m
48.563%
20.098%
31.339%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESVKLYDOH
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIO7M1D22
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXCFHD2J4
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM19239 with HindIII
File
Alignments (bam)
4DNFIEZ1LWUS
259.94m
17.114%
7.825%
5.119%
3.651%
0.371%
Experiment
4DNEXMKYVEBJ
Bio Rep 2, Tec Rep 1
Dilution Hi-C on GM19239 with HindIII
File
Alignments (bam)
4DNFI2AJBPAB
490.25m
11.099%
8.537%
15.254%
4.68%
0.223%