ExperimentSetReplicate

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ExperimentSet4DNESDG6WDIU
released
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CTCC experiments with in vitro crosslinking without restriction digestion on GM12878 cells

   January 25th, 2022 at 4:56pm
Source Publication
Cryomilling Tethered Chromatin Conformation Capture reveal new insights into inter-chromosomal interactions
Xu J, Kumar S, et al., bioRxiv 2022

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
GM12878 (Tier 1)
Experiment Type(s) 
TCC
Modification Type 
None
Treatment Type 
None
Assay Details 
None

5 Processed Files

    Explore Data

Loading
Experiment
File
File Type
File Size
Notes
From Multiple Experiments
4DNESDG6WDIU
Multiple Experiments
File
4DNFIZHUZUC5
contact list-combined (pairs)
4.07 GB
-
File
4DNFIOFHVFTV
contact matrix (hic)
2.43 GB
-
File
4DNFIGXADXT9
contact matrix (mcool)
1.47 GB
Experiment
4DNEXB38XYX1
Bio Rep 1, Tec Rep 1
TCC on GM12878 (Tier 1)
File
4DNFIREAV2IJ
alignments (bam)
91.28 GB
-
File
4DNFID81Q8V8
contact list-replicate (pairs)
4.07 GB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESDG6WDIU
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIZHUZUC5
223.8m
14.629%
50.128%
35.243%
Experiment
4DNEXB38XYX1
Bio Rep 1, Tec Rep 1
TCC on GM12878 (Tier 1)
File
Contact List-replicate (pairs)
4DNFID81Q8V8
223.8m
14.629%
50.128%
35.243%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESDG6WDIU
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIGXADXT9
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXB38XYX1
Bio Rep 1, Tec Rep 1
TCC on GM12878 (Tier 1)
File
Alignments (bam)
4DNFIREAV2IJ
427m
20.915%
8.574%
7.758%
10.339%
0.672%