Experiment Set

4DNESK1HNT3M
released
View JSON

Custom Set: IMR90 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 
IMR-90
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

14 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXLU8GQFA
in situ Hi-C on IMR-90 with MboI
File
4DNFI4B762Q1
alignments (bam)
47.28 GB
File
4DNFIW2BKSNF
contact list-replicate (pairs)
3.32 GB
Experiment
4DNEXR2HZ74S
in situ Hi-C on IMR-90 with MboI
File
4DNFI62G7SX5
alignments (bam)
43.67 GB
File
4DNFIAAUZ7EP
contact list-replicate (pairs)
3.58 GB
Experiment
4DNEXQO7VT6S
in situ Hi-C on IMR-90 with MboI
File
4DNFIS4CAP2V
alignments (bam)
20.83 GB
File
4DNFIMU9T2QI
contact list-replicate (pairs)
1.74 GB
Experiment
4DNEXC4DJ6WB
in situ Hi-C on IMR-90 with MboI
File
4DNFIV39TZBV
alignments (bam)
62.23 GB
File
4DNFIHUVCM35
contact list-replicate (pairs)
4.03 GB
Experiment
4DNEX99DWGVL
in situ Hi-C on IMR-90 with MboI
File
4DNFI995WWYE
alignments (bam)
53.41 GB
File
4DNFIPAEWHQC
contact list-replicate (pairs)
3.71 GB
Experiment
4DNEXODC6CI1
in situ Hi-C on IMR-90 with MboI
File
4DNFIT5DBVTD
alignments (bam)
51.2 GB
File
4DNFIH1ZQWOM
contact list-replicate (pairs)
3.66 GB
Experiment
4DNEXBIIOU3P
in situ Hi-C on IMR-90 with MboI
File
4DNFIYC6653B
alignments (bam)
4.97 GB
File
4DNFIGSQVM9I
contact list-replicate (pairs)
403.91 MB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXLU8GQFA
in situ Hi-C on IMR-90 with MboI
File
Alignments (bam)
4DNFI4B762Q1
252.73m
12.415%
10.834%
2.573%
5.442%
0.204%
Experiment
4DNEXR2HZ74S
in situ Hi-C on IMR-90 with MboI
File
Alignments (bam)
4DNFI62G7SX5
240.44m
7.695%
10.276%
1.04%
4.39%
0.313%
Experiment
4DNEXQO7VT6S
in situ Hi-C on IMR-90 with MboI
File
Alignments (bam)
4DNFIS4CAP2V
117.8m
6.051%
10.758%
0.73%
4.31%
0.386%
Experiment
4DNEXC4DJ6WB
in situ Hi-C on IMR-90 with MboI
File
Alignments (bam)
4DNFIV39TZBV
331.63m
10.026%
10.664%
3.292%
9.676%
0.287%
Experiment
4DNEX99DWGVL
in situ Hi-C on IMR-90 with MboI
File
Alignments (bam)
4DNFI995WWYE
289.37m
8.758%
10.663%
3.938%
7.235%
0.322%
Experiment
4DNEXODC6CI1
in situ Hi-C on IMR-90 with MboI
File
Alignments (bam)
4DNFIT5DBVTD
276.81m
12.196%
11.292%
1.889%
5.484%
0.216%
Experiment
4DNEXBIIOU3P
in situ Hi-C on IMR-90 with MboI
File
Alignments (bam)
4DNFIYC6653B
26.45m
6.832%
11.261%
0.336%
4.696%
0.33%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEXLU8GQFA
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIW2BKSNF
173.71m
59.516%
25.728%
14.756%
Experiment
4DNEXR2HZ74S
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIAAUZ7EP
184.17m
62.173%
20.783%
17.045%
Experiment
4DNEXQO7VT6S
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIMU9T2QI
92.06m
59.49%
23.201%
17.309%
Experiment
4DNEXC4DJ6WB
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIHUVCM35
220.01m
51.688%
31.536%
16.777%
Experiment
4DNEX99DWGVL
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIPAEWHQC
200.84m
54.951%
27.298%
17.751%
Experiment
4DNEXODC6CI1
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIH1ZQWOM
191.38m
58.184%
25.231%
16.585%
Experiment
4DNEXBIIOU3P
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIGSQVM9I
20.33m
60.649%
20.183%
19.168%