ExperimentSetReplicate

ExperimentSet4DNESG15UT75
released
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Replicates of in situ DNase Hi-C on wild-type Patski cells

   February 6th, 2018 at 9:57pm
Source Publication
Orientation-dependent Dxz4 contacts shape the 3D structure of the inactive X chromosome.
Bonora G, Deng X, et al., Nature communications 2018

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
immortalized cells
Sample 
Patski
Experiment Type(s) 
DNase Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DNaseI

9 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESG15UT75
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIIUM9A7W
153.22m
26.538%
58.151%
15.311%
Experiment
4DNEX3IVMKFZ
Bio Rep 1, Tec Rep 1
DNase Hi-C on Patski with DNaseI
File
Contact List-replicate (pairs)
4DNFILL56BEZ
88.07m
18.934%
71.407%
9.659%
Experiment
4DNEXSURRHM7
Bio Rep 2, Tec Rep 1
DNase Hi-C on Patski with DNaseI
File
Contact List-replicate (pairs)
4DNFIOLCUOJ5
36.86m
37.421%
42.362%
20.217%
Experiment
4DNEXXX48QKL
Bio Rep 3, Tec Rep 1
DNase Hi-C on Patski with DNaseI
File
Contact List-replicate (pairs)
4DNFIXTMCDBY
28.29m
36.031%
37.454%
26.515%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESG15UT75
Multiple Experiments
File
Contact Matrix (mcool)
4DNFISCTVRU3
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX3IVMKFZ
Bio Rep 1, Tec Rep 1
DNase Hi-C on Patski with DNaseI
File
Alignments (bam)
4DNFII3RYDTT
239.13m
25.824%
12.8%
4.298%
20.249%
0.063%
Experiment
4DNEXSURRHM7
Bio Rep 2, Tec Rep 1
DNase Hi-C on Patski with DNaseI
File
Alignments (bam)
4DNFI5CHXIUE
252.93m
18.562%
19.497%
37.38%
9.988%
0.031%
Experiment
4DNEXXX48QKL
Bio Rep 3, Tec Rep 1
DNase Hi-C on Patski with DNaseI
File
Alignments (bam)
4DNFII7RHP3Q
93.16m
11.867%
13.786%
4.668%
39.317%
0.082%