ExperimentSetReplicate

ExperimentSet4DNESGW9DHH3
released
View JSON

dilution Hi-C on gm12878 with MspI and bio-dCTP

   April 9th, 2017 at 5:35pm
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) 
Dilution Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MspI

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESGW9DHH3
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIYY5I1YA
4.48m
25.803%
60.341%
13.856%
Experiment
4DNEX777GE43
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM12878 with MspI
File
Contact List-replicate (pairs)
4DNFIE48ZO3Z
3.37m
27.477%
57.538%
14.985%
Experiment
4DNEXWLU474S
Bio Rep 2, Tec Rep 1
Dilution Hi-C on GM12878 with MspI
File
Contact List-replicate (pairs)
4DNFIC4SK87I
1.11m
20.718%
68.856%
10.425%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESGW9DHH3
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIUU4MAJA
1000; 2000; 5000; 10000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX777GE43
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM12878 with MspI
File
Alignments (bam)
4DNFIYREZMNW
4.17m
3.914%
11.836%
0.144%
3.413%
0.451%
Experiment
4DNEXWLU474S
Bio Rep 2, Tec Rep 1
Dilution Hi-C on GM12878 with MspI
File
Alignments (bam)
4DNFIZCFRMO2
1.33m
3.284%
9.981%
0.112%
3.102%
0.504%