ExperimentSetReplicate

ExperimentSet4DNESCZJD9KK
replaced

MicroC Libraries from HFFc6 cells, biological replicate 1, FA and DSG cross-linked, MNase digestion

   November 17th, 2017 at 8:53pm

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.


Experiment Set Properties  


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

12 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXC1TYVLD
Bio Rep 1, Tec Rep 1
Micro-C on HFFc6 (Tier 1) with MNase
alignments (bam)
63.83 GB
contact list-replicate (pairs)
8.62 GB
Experiment
4DNEX1MDLILR
Bio Rep 1, Tec Rep 2
Micro-C on HFFc6 (Tier 1) with MNase
alignments (bam)
64.42 GB
contact list-replicate (pairs)
9 GB
Experiment
4DNEXRJYVOZJ
Bio Rep 1, Tec Rep 3
Micro-C on HFFc6 (Tier 1) with MNase
alignments (bam)
62.32 GB
contact list-replicate (pairs)
8.6 GB
Experiment
4DNEXONC5BJ1
Bio Rep 1, Tec Rep 4
Micro-C on HFFc6 (Tier 1) with MNase
alignments (bam)
64.16 GB
contact list-replicate (pairs)
8.85 GB
Experiment
4DNEX9TF73VI
Bio Rep 1, Tec Rep 5
Micro-C on HFFc6 (Tier 1) with MNase
alignments (bam)
63.67 GB
contact list-replicate (pairs)
8.71 GB
Experiment
4DNEX5F27GL2
Bio Rep 1, Tec Rep 6
Micro-C on HFFc6 (Tier 1) with MNase
alignments (bam)
64.63 GB
contact list-replicate (pairs)
8.95 GB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXC1TYVLD
Bio Rep 1, Tec Rep 1
Micro-C on HFFc6 (Tier 1) with MNase
File
Alignments (bam)
4DNFINB1CUQU
746.16m
3.502%
20.966%
8.522%
0.005%
0.072%
Experiment
4DNEX1MDLILR
Bio Rep 1, Tec Rep 2
Micro-C on HFFc6 (Tier 1) with MNase
File
Alignments (bam)
4DNFINJ8BBBJ
743.86m
3.157%
20.913%
5.871%
0.007%
0.074%
Experiment
4DNEXRJYVOZJ
Bio Rep 1, Tec Rep 3
Micro-C on HFFc6 (Tier 1) with MNase
File
Alignments (bam)
4DNFIHF468MZ
706.29m
3.245%
19.462%
6.966%
0.004%
0.075%
Experiment
4DNEXONC5BJ1
Bio Rep 1, Tec Rep 4
Micro-C on HFFc6 (Tier 1) with MNase
File
Alignments (bam)
4DNFI44CAKN7
742.73m
3.53%
19.702%
7.768%
0.005%
0.075%
Experiment
4DNEX9TF73VI
Bio Rep 1, Tec Rep 5
Micro-C on HFFc6 (Tier 1) with MNase
File
Alignments (bam)
4DNFIO9G2R18
735.11m
3.414%
20.267%
7.892%
0.006%
0.078%
Experiment
4DNEX5F27GL2
Bio Rep 1, Tec Rep 6
Micro-C on HFFc6 (Tier 1) with MNase
File
Alignments (bam)
4DNFI1VMSHH3
729.68m
3.932%
19.998%
5.273%
0.006%
0.082%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEXC1TYVLD
Bio Rep 1, Tec Rep 1
Micro-C on HFFc6 (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFICOEXGPJ
499.96m
19.172%
74.271%
6.557%
Experiment
4DNEX1MDLILR
Bio Rep 1, Tec Rep 2
Micro-C on HFFc6 (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIK8UIB5B
521.09m
19.403%
73.939%
6.658%
Experiment
4DNEXRJYVOZJ
Bio Rep 1, Tec Rep 3
Micro-C on HFFc6 (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIYBTHGNA
496.69m
20.103%
74.055%
5.842%
Experiment
4DNEXONC5BJ1
Bio Rep 1, Tec Rep 4
Micro-C on HFFc6 (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIJZDEIZ3
512.44m
19.489%
74.539%
5.972%
Experiment
4DNEX9TF73VI
Bio Rep 1, Tec Rep 5
Micro-C on HFFc6 (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIN7IIIY6
502.97m
19.349%
73.91%
6.741%
Experiment
4DNEX5F27GL2
Bio Rep 1, Tec Rep 6
Micro-C on HFFc6 (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIBHI5YI9
516.55m
19.524%
74.466%
6.011%