ExperimentSetReplicate

ExperimentSet4DNESAGG7EUC
released

Micro-C from WTC derived iPS cells, for comparison with Hi-C experiments.

   November 5th, 2019 at 2:41pm

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 
induced pluripotent stem cell
Biosource 
WTC-11 AAVS1-GFP C6
Experiment Type(s) 
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Enzyme: MNase

19 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESAGG7EUC
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI3ULPBI5
1.83 billion
26.679%
64.741%
8.58%
Experiment
4DNEXCP7ET5W
Bio Rep 1, Tec Rep 1
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Contact List-replicate (pairs)
4DNFIF6UBCYP
221.68m
26.906%
64.722%
8.372%
Experiment
4DNEXHZ9Z9K8
Bio Rep 1, Tec Rep 2
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Contact List-replicate (pairs)
4DNFIIAN6IIE
198.18m
27.016%
64.349%
8.636%
Experiment
4DNEXPY8QHS6
Bio Rep 1, Tec Rep 3
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Contact List-replicate (pairs)
4DNFI3DJRKNA
211.86m
26.384%
65.045%
8.571%
Experiment
4DNEX44GG49P
Bio Rep 1, Tec Rep 4
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Contact List-replicate (pairs)
4DNFIO7APPCP
237.9m
26.383%
65.008%
8.61%
Experiment
4DNEXIN89MJF
Bio Rep 1, Tec Rep 5
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Contact List-replicate (pairs)
4DNFIM9XEZZU
235.48m
26.314%
65.207%
8.479%
Experiment
4DNEXFSPKE4T
Bio Rep 1, Tec Rep 6
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Contact List-replicate (pairs)
4DNFI8VRRCA1
233.54m
26.755%
64.61%
8.635%
Experiment
4DNEXEX6J8ZW
Bio Rep 1, Tec Rep 7
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Contact List-replicate (pairs)
4DNFIMYBFB36
243.2m
26.963%
64.479%
8.557%
Experiment
4DNEX6GZ1GXQ
Bio Rep 1, Tec Rep 8
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Contact List-replicate (pairs)
4DNFIDTK6FR3
244.35m
26.739%
64.492%
8.769%
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXCP7ET5W
Bio Rep 1, Tec Rep 1
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Alignments (bam)
4DNFIPPEP1D4
363.84m
4.282%
16.393%
18.394%
0.005%
0.022%
Experiment
4DNEXHZ9Z9K8
Bio Rep 1, Tec Rep 2
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Alignments (bam)
4DNFIDEQHJRP
341.53m
4.513%
16.265%
21.187%
0.008%
0.021%
Experiment
4DNEXPY8QHS6
Bio Rep 1, Tec Rep 3
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Alignments (bam)
4DNFI8MP4CPL
363.52m
4.74%
16.621%
20.354%
0.007%
0.02%
Experiment
4DNEX44GG49P
Bio Rep 1, Tec Rep 4
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Alignments (bam)
4DNFIGAZ1M59
382.45m
4.486%
16.426%
16.875%
0.008%
0.02%
Experiment
4DNEXIN89MJF
Bio Rep 1, Tec Rep 5
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Alignments (bam)
4DNFIOYWX3H9
383.97m
4.782%
16.736%
17.147%
0.008%
0.021%
Experiment
4DNEXFSPKE4T
Bio Rep 1, Tec Rep 6
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Alignments (bam)
4DNFIX7M88Q1
376.99m
4.337%
16.434%
17.274%
0.006%
0.02%
Experiment
4DNEXEX6J8ZW
Bio Rep 1, Tec Rep 7
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Alignments (bam)
4DNFI2UN4IRZ
387.14m
4.614%
16.506%
16.051%
0.008%
0.02%
Experiment
4DNEX6GZ1GXQ
Bio Rep 1, Tec Rep 8
Micro-C on WTC-11 AAVS1-GFP C6 with MNase
File
Alignments (bam)
4DNFIMBV6ILT
373.27m
4.977%
16.43%
13.122%
0.008%
0.022%