ExperimentSetReplicate

ExperimentSet4DNESMXBLGKA
released
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Small-scale in situ Hi-C on mouse ES cells

   January 10th, 2020 at 3:45pm
Source Publication
Allelic reprogramming of 3D chromatin architecture during early mammalian development.
Du Z, Zheng H, et al., Nature 2017

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
R1 mESC line
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESMXBLGKA
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI7SEMSOQ
145.22m
63.351%
21.507%
15.143%
Experiment
4DNEXK35JIU6
Bio Rep 1, Tec Rep 1
in situ Hi-C on R1 mESC line with MboI
File
Contact List-replicate (pairs)
4DNFIFB4DI6H
85.78m
62.252%
22.537%
15.211%
Experiment
4DNEX82F5GJ7
Bio Rep 2, Tec Rep 1
in situ Hi-C on R1 mESC line with MboI
File
Contact List-replicate (pairs)
4DNFIXPP27OM
59.44m
64.936%
20.019%
15.044%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESMXBLGKA
Multiple Experiments
File
Contact Matrix (mcool)
4DNFITHTURR9
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXK35JIU6
Bio Rep 1, Tec Rep 1
in situ Hi-C on R1 mESC line with MboI
File
Alignments (bam)
4DNFITTKZVQQ
217.64m
9.491%
8.606%
20.871%
21.618%
0.059%
Experiment
4DNEX82F5GJ7
Bio Rep 2, Tec Rep 1
in situ Hi-C on R1 mESC line with MboI
File
Alignments (bam)
4DNFIX265JZX
161.11m
10.094%
8.248%
24.126%
20.636%
0.053%