ExperimentSetReplicate

ExperimentSet4DNESTJOLVFJ
released
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HiC on WT ZF Embryos Collected at 5.3h post-fertilization

   June 18th, 2020 at 2:33pm
Source Publication
Chromatin architecture transitions from zebrafish sperm through early embryogenesis.
Wike CL, Guo Y, et al., Genome research 2021

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
D. rerio
Sample Type 
whole organisms
Sample 
Zebrafish Embryo
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

20 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESTJOLVFJ
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI9RSTST6
148.09m
23.392%
56.953%
19.654%
Experiment
4DNEX356NYP6
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIDKDP8S4
12.72m
9.442%
82.65%
7.907%
Experiment
4DNEX9JZLPIS
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIAOLVW2M
11.62m
10.576%
79.126%
10.298%
Experiment
4DNEX13LRK66
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIJVK79RW
11.62m
27.156%
51.012%
21.832%
Experiment
4DNEXWT761BS
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIENG6IPF
2.34m
24.208%
51.265%
24.527%
Experiment
4DNEX4SPUQIV
Bio Rep 4, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI237R9DQ
42.44m
10.932%
78.252%
10.816%
Experiment
4DNEXRJ9PHGI
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIGBGOYK8
13.83m
36.358%
34.585%
29.057%
Experiment
4DNEXGE4UQ2S
Bio Rep 5, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIBT5FFUE
53.53m
35.168%
36.462%
28.37%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESTJOLVFJ
Multiple Experiments
File
Contact Matrix (mcool)
4DNFICZEM7R9
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX356NYP6
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIM2KN9Q5
29.66m
9.071%
13.761%
6.39%
27.893%
0.705%
Experiment
4DNEX9JZLPIS
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIM19S998
31.11m
12.198%
11.405%
3.757%
35.275%
0.611%
Experiment
4DNEX13LRK66
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIGG4STKD
34.08m
16.646%
14.274%
1.69%
33.29%
0.718%
Experiment
4DNEXWT761BS
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI42VJ553
20.82m
8.519%
15.372%
40.63%
24.244%
0.243%
Experiment
4DNEX4SPUQIV
Bio Rep 4, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIUH1DM4Z
240.23m
10.798%
9.467%
19.779%
42.291%
0.3%
Experiment
4DNEXRJ9PHGI
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFII86GW7U
31.31m
11.782%
18.48%
4.268%
21.301%
0.964%
Experiment
4DNEXGE4UQ2S
Bio Rep 5, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIZMEYD38
251.02m
10.8%
15.444%
24.734%
27.699%
0.478%