ExperimentSetReplicate

ExperimentSet4DNESXTSP7H7
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dilution Hi-C on gm12878 with NcoI_MspI_BspHI and bio-dUTP

   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: NcoI_MspI_BspHI

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESXTSP7H7
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIMVC88WJ
3.7m
36.994%
15.208%
47.798%
Experiment
4DNEXNIDLN6Q
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM12878 with NcoI_MspI_BspHI
File
Contact List-replicate (pairs)
4DNFIYDCC589
1.98m
42.379%
15.458%
42.163%
Experiment
4DNEXGLSLGVQ
Bio Rep 1, Tec Rep 2
Dilution Hi-C on GM12878 with NcoI_MspI_BspHI
File
Contact List-replicate (pairs)
4DNFISVQRP7I
1.72m
30.778%
14.92%
54.302%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESXTSP7H7
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIWO9BDFZ
1000; 2000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXNIDLN6Q
Bio Rep 1, Tec Rep 1
Dilution Hi-C on GM12878 with NcoI_MspI_BspHI
File
Alignments (bam)
4DNFIOOTD3ZO
2.61m
6.183%
10.725%
0.066%
6.961%
0.415%
Experiment
4DNEXGLSLGVQ
Bio Rep 1, Tec Rep 2
Dilution Hi-C on GM12878 with NcoI_MspI_BspHI
File
Alignments (bam)
4DNFIR3RBUI8
2.26m
6.2%
10.819%
0.067%
6.923%
0.447%