Experiment Set

4DNESYONDEEM
released
View JSON

Custom Set: HUVEC 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 
HUVEC cell
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

6 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXNM5G5NJ
in situ Hi-C on HUVEC cell with MboI
File
4DNFISO3EME3
alignments (bam)
28.1 GB
File
4DNFINB9OWO9
contact list-replicate (pairs)
3.69 GB
Experiment
4DNEX2ET3OY1
in situ Hi-C on HUVEC cell with MboI
File
4DNFIA5OQ5P7
alignments (bam)
59.9 GB
File
4DNFIHJQRHCL
contact list-replicate (pairs)
3.23 GB
Experiment
4DNEX81QMZAN
in situ Hi-C on HUVEC cell with MboI
File
4DNFIGKQDTOR
alignments (bam)
27.52 GB
File
4DNFIVQZA7YJ
contact list-replicate (pairs)
1.97 GB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXNM5G5NJ
in situ Hi-C on HUVEC cell with MboI
File
Alignments (bam)
4DNFISO3EME3
293.14m
7.598%
21.904%
4.161%
0.002%
0.296%
Experiment
4DNEX2ET3OY1
in situ Hi-C on HUVEC cell with MboI
File
Alignments (bam)
4DNFIA5OQ5P7
279.34m
14.273%
14.562%
1.79%
10.842%
0.34%
Experiment
4DNEX81QMZAN
in situ Hi-C on HUVEC cell with MboI
File
Alignments (bam)
4DNFIGKQDTOR
159.63m
10.554%
12.78%
6.342%
7.789%
0.328%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEXNM5G5NJ
in situ Hi-C on HUVEC cell with MboI
File
Contact List-replicate (pairs)
4DNFINB9OWO9
194.46m
61.534%
17.629%
20.837%
Experiment
4DNEX2ET3OY1
in situ Hi-C on HUVEC cell with MboI
File
Contact List-replicate (pairs)
4DNFIHJQRHCL
163.51m
45.712%
15.483%
38.805%
Experiment
4DNEX81QMZAN
in situ Hi-C on HUVEC cell with MboI
File
Contact List-replicate (pairs)
4DNFIVQZA7YJ
99.82m
52.087%
16.01%
31.903%