ExperimentSetReplicate

ExperimentSet4DNES1ZEJNRU
released
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in situ Hi-C on IMR90 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 
IMR-90
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

20 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES1ZEJNRU
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIIG4IWKW
1.08 billion
57.314%
25.951%
16.735%
Experiment
4DNEXLU8GQFA
Bio Rep 1, Tec Rep 1
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIW2BKSNF
173.71m
59.516%
25.728%
14.756%
Experiment
4DNEXODC6CI1
Bio Rep 1, Tec Rep 2
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
Bio Rep 1, Tec Rep 3
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIGSQVM9I
20.33m
60.649%
20.183%
19.168%
Experiment
4DNEXQO7VT6S
Bio Rep 1, Tec Rep 4
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIMU9T2QI
92.06m
59.49%
23.201%
17.309%
Experiment
4DNEXR2HZ74S
Bio Rep 1, Tec Rep 5
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIAAUZ7EP
184.17m
62.173%
20.783%
17.045%
Experiment
4DNEX99DWGVL
Bio Rep 2, Tec Rep 1
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIPAEWHQC
200.84m
54.951%
27.298%
17.751%
Experiment
4DNEXC4DJ6WB
Bio Rep 2, Tec Rep 2
in situ Hi-C on IMR-90 with MboI
File
Contact List-replicate (pairs)
4DNFIHUVCM35
220.01m
51.688%
31.536%
16.777%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES1ZEJNRU
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIJTOIGOI
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXLU8GQFA
Bio Rep 1, Tec Rep 1
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
4DNEXODC6CI1
Bio Rep 1, Tec Rep 2
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
Bio Rep 1, Tec Rep 3
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
4DNEXQO7VT6S
Bio Rep 1, Tec Rep 4
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
4DNEXR2HZ74S
Bio Rep 1, Tec Rep 5
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
4DNEX99DWGVL
Bio Rep 2, Tec Rep 1
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
4DNEXC4DJ6WB
Bio Rep 2, Tec Rep 2
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%