ExperimentSetReplicate

ExperimentSet4DNESLLA3R1V
released
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in situ Hi-C on gm12878 with MboI and bio-dATP (in agar plugs)

   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 
immortalized cells
Sample 
GM12878
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESLLA3R1V
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIEIXESWQ
145.8m
46.963%
34.384%
18.653%
Experiment
4DNEXL8HF2D8
Bio Rep 1, Tec Rep 1
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIXFQDLLU
76.42m
47.666%
33.497%
18.836%
Experiment
4DNEX21IGCLD
Bio Rep 1, Tec Rep 2
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIZZO8TNU
69.37m
46.188%
35.361%
18.451%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESLLA3R1V
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI3PNAYBK
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXL8HF2D8
Bio Rep 1, Tec Rep 1
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIMRUZFUJ
144.63m
21.254%
9.232%
0.53%
16.145%
0.176%
Experiment
4DNEX21IGCLD
Bio Rep 1, Tec Rep 2
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIFACXT5K
139.06m
23.015%
8.868%
0.578%
17.652%
0.167%