ExperimentSetReplicate

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ExperimentSet4DNESLZVKJ7V
released
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Hi-C: Hela-Kyoto cells control

   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 
None
Treatment Type 
None
Assay Details 
Enzyme: HindIII

8 Processed Files

    Explore Data

Loading
Experiment
File
File Type
File Size
Notes
From Multiple Experiments
4DNESLZVKJ7V
Multiple Experiments
File
4DNFIUZUMFAD
contact list-combined (pairs)
2.88 GB
-
File
4DNFIIF6VAGN
contact matrix (hic)
961.45 MB
-
File
4DNFISYVIBKG
contact matrix (mcool)
587.55 MB
File
4DNFIMQ75LBO
boundaries (bed)
188.89 kB
-
File
4DNFIOS3MTT7
insulation score-diamond (bw)
3.93 MB
-
File
4DNFI2CS6OX3
compartments (bw)
207.54 kB
-
Experiment
4DNEXKOJRO7A
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
4DNFILFTJ8IZ
alignments (bam)
23.25 GB
-
File
4DNFIIR6K5Z6
contact list-replicate (pairs)
2.88 GB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESLZVKJ7V
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIUZUMFAD
171.93m
44.167%
51.016%
4.817%
Experiment
4DNEXKOJRO7A
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
Contact List-replicate (pairs)
4DNFIIR6K5Z6
171.93m
44.167%
51.016%
4.817%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESLZVKJ7V
Multiple Experiments
File
Contact Matrix (mcool)
4DNFISYVIBKG
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXKOJRO7A
Bio Rep 1, Tec Rep 1
Dilution Hi-C on HeLa cell line with HindIII
File
Alignments (bam)
4DNFILFTJ8IZ
250.01m
12.58%
13.612%
4.924%
0.117%
0.094%