Experiment Set

4DNESZQJ1UWC
released
View JSON

Custom Set: NHEK 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 
192627
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
4DNEXLUNKQ9B
in situ Hi-C on 192627 with MboI
File
4DNFI1RHW7LD
alignments (bam)
44.72 GB
File
4DNFI3T437K2
contact list-replicate (pairs)
3.25 GB
Experiment
4DNEX6MBIGEW
in situ Hi-C on 192627 with MboI
File
4DNFI9XF6ZIO
alignments (bam)
111.28 GB
File
4DNFI8KN3VWI
contact list-replicate (pairs)
5.83 GB
Experiment
4DNEX8ET72CE
in situ Hi-C on 192627 with MboI
File
4DNFIO53UQJ1
alignments (bam)
56.01 GB
File
4DNFIKQY3ILC
contact list-replicate (pairs)
3.65 GB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXLUNKQ9B
in situ Hi-C on 192627 with MboI
File
Alignments (bam)
4DNFI1RHW7LD
230m
9.591%
13.176%
0.704%
5.849%
0.59%
Experiment
4DNEX6MBIGEW
in situ Hi-C on 192627 with MboI
File
Alignments (bam)
4DNFI9XF6ZIO
536.75m
16.007%
9.202%
7.149%
7.98%
0.155%
Experiment
4DNEX8ET72CE
in situ Hi-C on 192627 with MboI
File
Alignments (bam)
4DNFIO53UQJ1
306.46m
15.399%
11.819%
5.705%
5.616%
0.482%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEXLUNKQ9B
in situ Hi-C on 192627 with MboI
File
Contact List-replicate (pairs)
4DNFI3T437K2
162.56m
38.388%
13.347%
48.265%
Experiment
4DNEX6MBIGEW
in situ Hi-C on 192627 with MboI
File
Contact List-replicate (pairs)
4DNFI8KN3VWI
320.24m
41.544%
43.134%
15.322%
Experiment
4DNEX8ET72CE
in situ Hi-C on 192627 with MboI
File
Contact List-replicate (pairs)
4DNFIKQY3ILC
188.35m
39.367%
12.663%
47.97%