ExperimentSetReplicate

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ExperimentSet4DNESW72J62T
released
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Replicates of in situ Dnase Hi-C on RUES2 stem cells

   January 5th, 2018 at 4:05pm
Source Publication
Dynamics of genome reorganization during human cardiogenesis reveal an RBM20-dependent splicing factory.
Bertero A, Fields PA, et al., Nature communications 2019

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
stem cells
Sample 
RUES2
Experiment Type(s) 
DNase Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DNaseI

8 Processed Files

    Explore Data

Loading
Experiment
File
File Type
File Size
Notes
From Multiple Experiments
4DNESW72J62T
Multiple Experiments
File
4DNFI8P78R49
contact list-combined (pairs)
4.26 GB
-
File
4DNFINLW374M
contact matrix (hic)
2.07 GB
-
File
4DNFIWDFUDCW
contact matrix (mcool)
1.28 GB
File
4DNFIZ4Y1XYY
compartments (bw)
205.91 kB
-
Experiment
4DNEX2BP2PR5
Bio Rep 1, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
4DNFI3Q4JK8J
alignments (bam)
21.48 GB
-
File
4DNFILXTX2FK
contact list-replicate (pairs)
2.32 GB
-
Experiment
4DNEXWPS7HX4
Bio Rep 2, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
4DNFI92YN6IQ
alignments (bam)
20.29 GB
-
File
4DNFIY3CIM91
contact list-replicate (pairs)
2.2 GB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESW72J62T
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI8P78R49
233.39m
34.604%
44.388%
21.008%
Experiment
4DNEX2BP2PR5
Bio Rep 1, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
Contact List-replicate (pairs)
4DNFILXTX2FK
120.07m
33.172%
46.274%
20.554%
Experiment
4DNEXWPS7HX4
Bio Rep 2, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
Contact List-replicate (pairs)
4DNFIY3CIM91
113.32m
36.122%
42.389%
21.489%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESW72J62T
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIWDFUDCW
5000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX2BP2PR5
Bio Rep 1, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
Alignments (bam)
4DNFI3Q4JK8J
165.65m
8.883%
13.04%
1.836%
3.755%
0.176%
Experiment
4DNEXWPS7HX4
Bio Rep 2, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
Alignments (bam)
4DNFI92YN6IQ
161.23m
9.095%
14.289%
3.535%
2.8%
0.18%