ExperimentSetReplicate

ExperimentSet4DNESDYFTSG5
released
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Replicates of dilution Hi-C on GM19204

   March 29th, 2019 at 10:51pm
Source Publication
Common DNA sequence variation influences 3-dimensional conformation of the human genome.
Gorkin DU, Qiu Y, et al., Genome biology 2019

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
GM19204
Experiment Type(s) 
Dilution Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: HindIII

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESDYFTSG5
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIS3EKMKV
535.11m
35.149%
27.7%
37.151%
Experiment
4DNEXJTTVISJ
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM19204 with HindIII
File
Contact List-replicate (pairs)
4DNFIS7R2ZNB
302.12m
38.49%
30.932%
30.578%
Experiment
4DNEXW6T5QSA
Bio Rep 2, Tec Rep 1
Dilution Hi-C on GM19204 with HindIII
File
Contact List-replicate (pairs)
4DNFIEA98ITQ
233m
30.817%
23.508%
45.675%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESDYFTSG5
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI78T9N5Y
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXJTTVISJ
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM19204 with HindIII
File
Alignments (bam)
4DNFIIK9JPOV
501.82m
13.798%
8.227%
14.027%
3.744%
0.327%
Experiment
4DNEXW6T5QSA
Bio Rep 2, Tec Rep 1
Dilution Hi-C on GM19204 with HindIII
File
Alignments (bam)
4DNFIKSORPB9
366.36m
11.356%
7.65%
11.063%
6.333%
0.302%