Experiment Set

4DNESPSJPW7R
released
View JSON

Custom Set: HMEC in situ Hi-C

   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 
Custom
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

12 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXAAMYLLT
in situ Hi-C on CC-2551 with MboI
File
4DNFI49968CC
alignments (bam)
3.3 GB
File
4DNFIWSXKIRR
contact list-replicate (pairs)
289.69 MB
Experiment
4DNEXITSEO9K
in situ Hi-C on CC-2551 with MboI
File
4DNFIXIDXXGV
alignments (bam)
80.8 GB
File
4DNFI97O9SAZ
contact list-replicate (pairs)
6.09 GB
Experiment
4DNEXDQFN7ML
in situ Hi-C on CC-2551 with MboI
File
4DNFI6G3HW9W
alignments (bam)
2.74 GB
File
4DNFIMCSMWKT
contact list-replicate (pairs)
248.03 MB
Experiment
4DNEXAK4YH22
in situ Hi-C on CC-2551 with MboI
File
4DNFIT2Z8ULY
alignments (bam)
2.87 GB
File
4DNFIMLQR82B
contact list-replicate (pairs)
259.15 MB
Experiment
4DNEXJZ3OAGO
in situ Hi-C on CC-2551 with MboI
File
4DNFIX27DX1H
alignments (bam)
3.42 GB
File
4DNFI7QWGXGQ
contact list-replicate (pairs)
309.18 MB
Experiment
4DNEXIJC6ASV
in situ Hi-C on CC-2551 with MboI
File
4DNFINZZ7XEW
alignments (bam)
1.48 GB
File
4DNFIKZP38N6
contact list-replicate (pairs)
134.35 MB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXAAMYLLT
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
4DNEXITSEO9K
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
4DNEXDQFN7ML
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
4DNEXAK4YH22
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%
Experiment
4DNEXJZ3OAGO
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
4DNEXIJC6ASV
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
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEXAAMYLLT
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFIWSXKIRR
14.69m
45.138%
31.423%
23.439%
Experiment
4DNEXITSEO9K
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFI97O9SAZ
318.06m
44.879%
28.456%
26.665%
Experiment
4DNEXDQFN7ML
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFIMCSMWKT
12.7m
43.89%
35.689%
20.421%
Experiment
4DNEXAK4YH22
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFIMLQR82B
13.13m
51.971%
27.264%
20.765%
Experiment
4DNEXJZ3OAGO
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFI7QWGXGQ
15.83m
48.683%
32.366%
18.952%
Experiment
4DNEXIJC6ASV
in situ Hi-C on CC-2551 with MboI
File
Contact List-replicate (pairs)
4DNFIKZP38N6
6.9m
32.24%
47.76%
20.001%