ExperimentSetReplicate

ExperimentSet4DNESW1SPPTD
released

Micro-C experiments on H1 derived endoderm, differentiated using the 4DN protocol.

   June 24th, 2020 at 8:17pm

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 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 
Biosource Type 
stem cell derived cell line
Biosource 
H1-hESC (Tier 1) differentiated to definitive endoderm
Experiment Type(s) 
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MNase

22 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESW1SPPTD
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIL84TXJ9
3.4 billion
22.948%
47.385%
29.668%
File
Contact List-replicate (pairs)
4DNFIOBB3FJV
463.05m
24.977%
50.667%
24.356%
File
Contact List-replicate (pairs)
4DNFINVTGV2T
465.8m
25.491%
51.21%
23.299%
File
Contact List-replicate (pairs)
4DNFIFUTHP4Q
430.76m
23.723%
50.37%
25.907%
File
Contact List-replicate (pairs)
4DNFIET7BS77
435.51m
23.793%
49.365%
26.842%
File
Contact List-replicate (pairs)
4DNFIC6HA2QF
327.53m
22.433%
42.998%
34.568%
File
Contact List-replicate (pairs)
4DNFI16WMFWK
426.02m
21.337%
45.035%
33.628%
File
Contact List-replicate (pairs)
4DNFIP8UA8FE
445.43m
20.984%
43.325%
35.691%
File
Contact List-replicate (pairs)
4DNFISPHZI17
405.92m
20.244%
44.417%
35.339%
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
File
Alignments (bam)
4DNFIW2YO3FQ
699.14m
3.97%
20.268%
9.526%
0.004%
0.141%
File
Alignments (bam)
4DNFINAFVEJR
729.09m
3.94%
20.129%
12.038%
0.005%
0.129%
File
Alignments (bam)
4DNFI6IZCIGL
693.04m
4.248%
20.949%
12.643%
0.004%
0.139%
File
Alignments (bam)
4DNFIEZBPTSB
673.57m
4.436%
20.985%
9.918%
0.004%
0.147%
File
Alignments (bam)
4DNFI8Z2LSG4
774.05m
4.236%
20.329%
33.118%
0.005%
0.106%
File
Alignments (bam)
4DNFIKCANJCE
682.37m
4.754%
21.007%
11.803%
0.004%
0.146%
File
Alignments (bam)
4DNFIDUYHPWU
687.64m
4.597%
21.019%
9.603%
0.004%
0.153%
File
Alignments (bam)
4DNFIWKNPRHK
674.58m
4.474%
21.373%
13.976%
0.004%
0.144%