ExperimentSetReplicate

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ExperimentSet4DNESSY8C22T
released
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Micro-C on JM8.N4 with Triptolide treatment to inhibit transcription initiation

   May 29th, 2019 at 6:06pm
Source Publication
Resolving the 3D Landscape of Transcription-Linked Mammalian Chromatin Folding.
Hsieh TS, Cattoglio C, et al., Molecular cell 2020

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
JM8.N4 (Tier 2)
Experiment Type(s) 
Micro-C
Modification Type 
None
Treatment Type 
Chemical
Assay Details 
Enzyme: MNase

6 Processed Files

    Explore Data

Loading
Experiment
File
File Type
File Size
Notes
From Multiple Experiments
4DNESSY8C22T
Multiple Experiments
File
4DNFIYBGP2L6
contact list-combined (pairs)
646.55 MB
-
File
4DNFI7RHE4AP
contact matrix (hic)
500.64 MB
-
File
4DNFIIWPHCM6
contact matrix (mcool)
290.16 MB
File
4DNFIPZXL27O
compartments (bw)
189.9 kB
-
Experiment
4DNEXQ68JF2P
Bio Rep 1, Tec Rep 1
Micro-C on JM8.N4 (Tier 2) with MNase
File
4DNFINU7NXEF
alignments (bam)
11.22 GB
-
File
4DNFI4Q8UVDJ
contact list-replicate (pairs)
646.55 MB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESSY8C22T
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIYBGP2L6
48.84m
35.188%
59.096%
5.716%
Experiment
4DNEXQ68JF2P
Bio Rep 1, Tec Rep 1
Micro-C on JM8.N4 (Tier 2) with MNase
File
Contact List-replicate (pairs)
4DNFI4Q8UVDJ
48.84m
35.188%
59.096%
5.716%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESSY8C22T
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIIWPHCM6
1000; 2000; 5000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXQ68JF2P
Bio Rep 1, Tec Rep 1
Micro-C on JM8.N4 (Tier 2) with MNase
File
Alignments (bam)
4DNFINU7NXEF
69.88m
3.954%
10.969%
6.374%
8.811%
0.071%