ExperimentSetReplicate

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ExperimentSet4DNES2PZV514
released
View JSON

Hi-C: Hela-Kyoto cells G2 sync.

   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
4DNES2PZV514
Multiple Experiments
File
4DNFI26JRPZY
contact list-combined (pairs)
4.84 GB
-
File
4DNFIMVDK3SI
contact matrix (hic)
1.23 GB
-
File
4DNFI8QIHT84
contact matrix (mcool)
787.21 MB
File
4DNFISIDVZ79
boundaries (bed)
181.17 kB
-
File
4DNFICIC593Q
insulation score-diamond (bw)
3.92 MB
-
File
4DNFIJ8R2YLC
compartments (bw)
207.15 kB
-
Experiment
4DNEXHHODUXZ
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
4DNFIAJ7ND3B
alignments (bam)
36.19 GB
-
File
4DNFIGARX5BC
contact list-replicate (pairs)
4.84 GB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNES2PZV514
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI26JRPZY
327.72m
47.468%
48.311%
4.221%
Experiment
4DNEXHHODUXZ
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
Contact List-replicate (pairs)
4DNFIGARX5BC
327.72m
47.468%
48.311%
4.221%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES2PZV514
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI8QIHT84
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXHHODUXZ
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
Alignments (bam)
4DNFIAJ7ND3B
469.25m
12.916%
13.334%
3.91%
0.001%
0.064%