ExperimentSetReplicate

ExperimentSet4DNESODGV2V2
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 C28
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
4DNESODGV2V2
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIEVQW3GY
1.73 billion
25.808%
61.875%
12.317%
Experiment
4DNEXPOAW8ZY
Bio Rep 1, Tec Rep 1
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Contact List-replicate (pairs)
4DNFI5DPDYP5
231.08m
26.259%
61.428%
12.314%
Experiment
4DNEX7I6IYAU
Bio Rep 1, Tec Rep 2
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Contact List-replicate (pairs)
4DNFINGKJKG9
223.63m
25.142%
62.963%
11.895%
Experiment
4DNEX17PG1C7
Bio Rep 1, Tec Rep 3
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Contact List-replicate (pairs)
4DNFIQMF34HE
224.83m
25.531%
62.631%
11.838%
Experiment
4DNEXX6XX18K
Bio Rep 1, Tec Rep 4
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Contact List-replicate (pairs)
4DNFI3WFNVU8
225.93m
26.046%
61.505%
12.449%
Experiment
4DNEXWBYZOX4
Bio Rep 1, Tec Rep 5
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Contact List-replicate (pairs)
4DNFI2TXI8FT
174.59m
26.147%
61.337%
12.516%
Experiment
4DNEXM3SBXEA
Bio Rep 1, Tec Rep 6
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Contact List-replicate (pairs)
4DNFIAJYCO41
194.46m
26.037%
61.529%
12.435%
Experiment
4DNEX6DGSKQL
Bio Rep 1, Tec Rep 7
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Contact List-replicate (pairs)
4DNFIXCHTEXJ
215.65m
26.084%
61.3%
12.616%
Experiment
4DNEXALB2B3Z
Bio Rep 1, Tec Rep 8
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Contact List-replicate (pairs)
4DNFIJRHLTGR
243.19m
25.355%
62.117%
12.528%
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXPOAW8ZY
Bio Rep 1, Tec Rep 1
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Alignments (bam)
4DNFICZ3HDV5
379.55m
4.8%
17.42%
16.891%
0.006%
0.024%
Experiment
4DNEX7I6IYAU
Bio Rep 1, Tec Rep 2
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Alignments (bam)
4DNFI12AFIIQ
359.82m
6.037%
17.817%
13.989%
0.006%
0.028%
Experiment
4DNEX17PG1C7
Bio Rep 1, Tec Rep 3
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Alignments (bam)
4DNFIKMRRWPR
375.59m
5.133%
17.67%
17.332%
0.006%
0.026%
Experiment
4DNEXX6XX18K
Bio Rep 1, Tec Rep 4
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Alignments (bam)
4DNFI3AFWKYN
377.43m
5.337%
17.29%
17.507%
0.006%
0.024%
Experiment
4DNEXWBYZOX4
Bio Rep 1, Tec Rep 5
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Alignments (bam)
4DNFI3TH9IB2
357.08m
5.523%
17.192%
28.385%
0.006%
0.019%
Experiment
4DNEXM3SBXEA
Bio Rep 1, Tec Rep 6
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Alignments (bam)
4DNFIK3PNICE
347.73m
5.53%
17.548%
20.993%
0.006%
0.023%
Experiment
4DNEX6DGSKQL
Bio Rep 1, Tec Rep 7
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Alignments (bam)
4DNFIGLHCJBF
384.66m
5.433%
17.28%
21.221%
0.006%
0.023%
Experiment
4DNEXALB2B3Z
Bio Rep 1, Tec Rep 8
Micro-C on WTC-11 AAVS1-GFP C28 with MNase
File
Alignments (bam)
4DNFI4ZZ5NV5
389.17m
4.546%
18.028%
14.93%
0.006%
0.029%