ExperimentSetReplicate

ExperimentSet4DNESNZZR2VD
released
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dilution Hi-C on gm12878 with HindIII and bio-dCTP

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

12 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESNZZR2VD
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIHOIQDVI
3.41 billion
26.606%
31.511%
41.882%
Experiment
4DNEXVHF97YT
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM12878 with HindIII
File
Contact List-replicate (pairs)
4DNFISGO7OS7
1.31 billion
33.07%
16.473%
50.457%
Experiment
4DNEXJ78M1F7
Bio Rep 2, Tec Rep 1
Dilution Hi-C on GM12878 with HindIII
File
Contact List-replicate (pairs)
4DNFII4JC7KV
726.5m
17.494%
49.822%
32.683%
Experiment
4DNEX17F64JD
Bio Rep 3, Tec Rep 1
Dilution Hi-C on GM12878 with HindIII
File
Contact List-replicate (pairs)
4DNFIB13H9QZ
1.38 billion
25.265%
36.158%
38.577%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESNZZR2VD
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIL76YMY6
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXVHF97YT
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM12878 with HindIII
File
Alignments (bam)
4DNFIBTTCCA7
2.97 billion
8.759%
8.624%
35.454%
2.997%
0.37%
Experiment
4DNEXJ78M1F7
Bio Rep 2, Tec Rep 1
Dilution Hi-C on GM12878 with HindIII
File
Alignments (bam)
4DNFIYRKYFUW
1.2 billion
5.448%
8.563%
23.238%
2.003%
0.313%
Experiment
4DNEX17F64JD
Bio Rep 3, Tec Rep 1
Dilution Hi-C on GM12878 with HindIII
File
Alignments (bam)
4DNFI79YNG4I
2.18 billion
8.517%
11.188%
14.551%
2.589%
0.317%