ExperimentSetReplicate

ExperimentSet4DNESOBRQ1WW
released
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Small-scale in situ Hi-C on mouse MII oocytes

   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 
primary cells
Sample 
oocyte
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESOBRQ1WW
Multiple Experiments
File
Contact List-combined (pairs)
4DNFILPO3IFY
66.63m
71.414%
25.49%
3.096%
Experiment
4DNEX8DFVJD3
Bio Rep 1, Tec Rep 1
in situ Hi-C on oocyte with MboI
File
Contact List-replicate (pairs)
4DNFIDTNRRK4
42.52m
74.08%
22.678%
3.242%
Experiment
4DNEXMP3DRO5
Bio Rep 2, Tec Rep 1
in situ Hi-C on oocyte with MboI
File
Contact List-replicate (pairs)
4DNFI49UWUGG
24.12m
66.715%
30.446%
2.839%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESOBRQ1WW
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI4E2U77R
5000; 10000; 25000; 50000; 100000; 250000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX8DFVJD3
Bio Rep 1, Tec Rep 1
in situ Hi-C on oocyte with MboI
File
Alignments (bam)
4DNFIN2I9MPO
184.81m
10.214%
10.823%
40.021%
15.938%
0.49%
Experiment
4DNEXMP3DRO5
Bio Rep 2, Tec Rep 1
in situ Hi-C on oocyte with MboI
File
Alignments (bam)
4DNFIVG6J6AT
282.35m
12.588%
7.525%
45.37%
25.975%
0.123%