Experiment Set

4DNESOKCNPXI
released
View JSON

Custom Set: GM12878 agar in situ Hi-C

   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 
Custom
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

4 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEX21IGCLD
in situ Hi-C on GM12878 with MboI
File
4DNFIFACXT5K
alignments (bam)
29.32 GB
File
4DNFIZZO8TNU
contact list-replicate (pairs)
1.3 GB
Experiment
4DNEXL8HF2D8
in situ Hi-C on GM12878 with MboI
File
4DNFIMRUZFUJ
alignments (bam)
29.95 GB
File
4DNFIXFQDLLU
contact list-replicate (pairs)
1.43 GB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX21IGCLD
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIFACXT5K
139.06m
23.015%
8.868%
0.578%
17.652%
0.167%
Experiment
4DNEXL8HF2D8
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIMRUZFUJ
144.63m
21.254%
9.232%
0.53%
16.145%
0.176%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEX21IGCLD
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIZZO8TNU
69.37m
46.188%
35.361%
18.451%
Experiment
4DNEXL8HF2D8
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIXFQDLLU
76.42m
47.666%
33.497%
18.836%