ExperimentSetReplicate

ExperimentSet4DNESDP9ECMN
released
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in situ Hi-C on GM12878 crosslinking titration - 1% FA, 1 min, RT

   April 10th, 2017 at 1:11am
Source Publication
Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes.
Sanborn AL, Rao SS, et al., Proceedings of the National Academy of Sciences of the United States of America 2015

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

6 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESDP9ECMN
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIU5XG6TN
987.78k
45.739%
27.103%
27.157%
Experiment
4DNEXU8OXQ34
Bio Rep 1, Tec Rep 1
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIUAUS2H6
987.78k
45.739%
27.103%
27.157%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESDP9ECMN
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI4988896
1000; 2000; 5000; 10000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXU8OXQ34
Bio Rep 1, Tec Rep 1
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFI157JQYK
1.9m
32.645%
9.28%
0.04%
5.996%
0.242%