ExperimentSetReplicate

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ExperimentSet4DNESWO4PE7L
released
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Hi-C: Hela-Kyoto cells CTCF-AID + auxin, 0 min

   February 20th, 2019 at 6:20pm
Source Publication
Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins.
Wutz G, Varnai C, et al., The EMBO journal 2017

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
HeLa cell line
Experiment Type(s) 
Dilution Hi-C
Modification Type 
  1. Crispr
  2. Stable Transfection
Treatment Type 
None
Assay Details 
Enzyme: HindIII

8 Processed Files

    Explore Data

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Experiment
File
File Type
File Size
Notes
From Multiple Experiments
4DNESWO4PE7L
Multiple Experiments
File
4DNFIRLV7PUU
contact list-combined (pairs)
1.83 GB
-
File
4DNFI86IEZXH
contact matrix (hic)
849.45 MB
-
File
4DNFIWKNZ73U
contact matrix (mcool)
500.65 MB
File
4DNFI7BAEZAA
boundaries (bed)
181.2 kB
-
File
4DNFIVTNJMB2
insulation score-diamond (bw)
3.91 MB
-
File
4DNFILPCMPS7
compartments (bw)
207.33 kB
-
Experiment
4DNEXYV9PXU5
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
4DNFIE4FMY5P
alignments (bam)
13.68 GB
-
File
4DNFITUHL4ZE
contact list-replicate (pairs)
1.83 GB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESWO4PE7L
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIRLV7PUU
147.99m
40.64%
54.489%
4.871%
Experiment
4DNEXYV9PXU5
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
Contact List-replicate (pairs)
4DNFITUHL4ZE
147.99m
40.64%
54.489%
4.871%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESWO4PE7L
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIWKNZ73U
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXYV9PXU5
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
Alignments (bam)
4DNFIE4FMY5P
193.32m
8.781%
12.631%
2.034%
0.001%
0.057%