ExperimentSetReplicate

ExperimentSet4DNESIE5R9HS
released
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in situ Hi-C on CC2551 with MboI and bio-dATP

   April 9th, 2017 at 5:34pm
Source Publication
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.
Rao SS, Huntley MH, et al., Cell 2014

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
primary cells
Sample 
CC-2551
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

18 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESIE5R9HS
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIIFAUT24
381.31m
45.029%
29.282%
25.689%
Experiment
4DNEXITSEO9K
Bio Rep 1, Tec Rep 1
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFI97O9SAZ
318.06m
44.879%
28.456%
26.665%
Experiment
4DNEXIJC6ASV
Bio Rep 2, Tec Rep 1
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFIKZP38N6
6.9m
32.24%
47.76%
20.001%
Experiment
4DNEXDQFN7ML
Bio Rep 2, Tec Rep 2
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFIMCSMWKT
12.7m
43.89%
35.689%
20.421%
Experiment
4DNEXJZ3OAGO
Bio Rep 2, Tec Rep 3
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFI7QWGXGQ
15.83m
48.683%
32.366%
18.952%
Experiment
4DNEXAAMYLLT
Bio Rep 2, Tec Rep 4
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFIWSXKIRR
14.69m
45.138%
31.423%
23.439%
Experiment
4DNEXAK4YH22
Bio Rep 2, Tec Rep 5
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFIMLQR82B
13.13m
51.971%
27.264%
20.765%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESIE5R9HS
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIGUIV5KO
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXITSEO9K
Bio Rep 1, Tec Rep 1
in situ Hi-C on CC-2551 with MboI
File
Alignments (bam)
4DNFIXIDXXGV
456.58m
10.196%
12.815%
2.675%
4.652%
0.542%
Experiment
4DNEXIJC6ASV
Bio Rep 2, Tec Rep 1
in situ Hi-C on CC-2551 with MboI
File
Alignments (bam)
4DNFINZZ7XEW
8.92m
4.984%
12.055%
2.176%
3.415%
1.84%
Experiment
4DNEXDQFN7ML
Bio Rep 2, Tec Rep 2
in situ Hi-C on CC-2551 with MboI
File
Alignments (bam)
4DNFI6G3HW9W
16.36m
5.099%
12.397%
1.083%
3.762%
1.51%
Experiment
4DNEXJZ3OAGO
Bio Rep 2, Tec Rep 3
in situ Hi-C on CC-2551 with MboI
File
Alignments (bam)
4DNFIX27DX1H
20.33m
5.279%
11.805%
1.048%
4.013%
0.808%
Experiment
4DNEXAAMYLLT
Bio Rep 2, Tec Rep 4
in situ Hi-C on CC-2551 with MboI
File
Alignments (bam)
4DNFI49968CC
19.3m
5.781%
12.715%
0.685%
4.685%
1.413%
Experiment
4DNEXAK4YH22
Bio Rep 2, Tec Rep 5
in situ Hi-C on CC-2551 with MboI
File
Alignments (bam)
4DNFIT2Z8ULY
16.91m
4.86%
12.173%
0.927%
4.419%
0.975%