ExperimentSetReplicate

ExperimentSet4DNESJC437VS
replaced

Mapping RNA-genome interactions in HFFc6 cell line using MARGI technology

   April 19th, 2018 at 6:54pm

Data Usage Guidelines  


Data Use Guidelines: This is a data set generated by the 4DN Network and made freely available to the scientific community. If you are intending to use these data for a publication, we ask that you please contact the data generating lab to discuss possible coordinated publication. In your manuscript, please cite the 4DN White Paper (doi:10.1038/nature23884) and the 4DN Data Portal paper (doi:10.1038/s41467-022-29697-4), and please acknowledge the 4DN lab which generated the data. Please direct any questions to the Data Coordination and Integration Center.

Assay Description  


Note: Replaced Item - 4DNESJC437VS  


This experiment set was replaced by 4DNESNGESP28 because new technical replicates were added.

Experiment Set Properties  


Set Type 
Replicate
Organism 
Sample Type 
immortalized cells
Experiment Type(s) 
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: AluI

4 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXWXUC1X2
Bio Rep 1, Tec Rep 1
MARGI on HFFc6 (Tier 1)
alignments (bam)
4.34 GB
contact list-replicate (pairs)
91.62 MB
Experiment
4DNEX21WVKWL
Bio Rep 1, Tec Rep 2
MARGI on HFFc6 (Tier 1)
alignments (bam)
3.82 GB
contact list-replicate (pairs)
120.28 MB

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>200000)
Short cis reads
Trans Reads
Details
Experiment
4DNEXWXUC1X2
Bio Rep 1, Tec Rep 1
MARGI on HFFc6 (Tier 1)
File
Contact List-replicate (pairs)
4DNFI3Z3CCKZ
2.56m
6.495%
62.831%
30.674%
Experiment
4DNEX21WVKWL
Bio Rep 1, Tec Rep 2
MARGI on HFFc6 (Tier 1)
File
Contact List-replicate (pairs)
4DNFILSC65AG
3.33m
9.502%
50.513%
39.985%