ExperimentSetReplicate

ExperimentSet4DNESCQH5Z72
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Hi-C: Hela-Kyoto cells Scc1-AID WAB + auxin, 180 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 
  1. RNAi
  2. Chemical
Assay Details 
Enzyme: HindIII

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESCQH5Z72
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIBSGK7HK
205.24m
31.875%
59.32%
8.805%
Experiment
4DNEX5UDLN3Z
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
Contact List-replicate (pairs)
4DNFI41RZLX2
205.24m
31.875%
59.32%
8.805%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESCQH5Z72
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI17E9AYZ
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX5UDLN3Z
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
Alignments (bam)
4DNFIXPYGESY
275.74m
6.234%
15.756%
3.577%
0.001%
0.061%