ExperimentSetReplicate

ExperimentSet4DNESRWDFFF8
released
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Replicates of DNase Hi-C on whole brain from an F1 adult female mouse

   February 6th, 2018 at 11:45pm
Source Publication
Bipartite structure of the inactive mouse X chromosome.
Deng X, Ma W, et al., Genome biology 2015

Assay Description  

Note on Processed Files  

Some annotated bam and pairs files generated in this Experiment Set may contain distinct reads that share the same identifier. This was caused by merging fastq files with integer identifiers (eg. @1, @2) during processing.

Experiment Set Properties  

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

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESRWDFFF8
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIZ3RDODA
447.41m
26.013%
63.928%
10.06%
Experiment
4DNEX8EW839G
Bio Rep 1, Tec Rep 1
DNase Hi-C on brain with DNaseI
File
Contact List-replicate (pairs)
4DNFIRAHL9B5
423.29m
26.013%
63.908%
10.079%
Experiment
4DNEXB8HHA81
Bio Rep 2, Tec Rep 1
DNase Hi-C on brain with DNaseI
File
Contact List-replicate (pairs)
4DNFI1KTTETW
24.12m
26.005%
64.28%
9.716%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESRWDFFF8
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIM38DJNE
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX8EW839G
Bio Rep 1, Tec Rep 1
DNase Hi-C on brain with DNaseI
File
Alignments (bam)
4DNFI3ZSO1JO
735.8m
18.128%
11.329%
5.064%
7.95%
0.045%
Experiment
4DNEXB8HHA81
Bio Rep 2, Tec Rep 1
DNase Hi-C on brain with DNaseI
File
Alignments (bam)
4DNFIPCU2LGI
332.13m
15.403%
15.825%
57.6%
3.91%
0.2%