ExperimentSetReplicate

ExperimentSet4DNESETP2XUO
released
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in situ Hi-C on gm12878 with HindIII and bio-dATP

   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) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: HindIII

6 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESETP2XUO
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIX5N2LKH
540.18k
55.601%
29.708%
14.692%
Experiment
4DNEX1S5EP3J
Bio Rep 1, Tec Rep 1
in situ Hi-C on GM12878 with HindIII
File
Contact List-replicate (pairs)
4DNFIA9EJ6Z5
540.18k
55.601%
29.708%
14.692%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESETP2XUO
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI7QWAH57
5000; 10000; 25000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX1S5EP3J
Bio Rep 1, Tec Rep 1
in situ Hi-C on GM12878 with HindIII
File
Alignments (bam)
4DNFI6KCIK74
874.73k
27.028%
6.905%
0.088%
4.225%
0.234%