ExperimentSetReplicate

ExperimentSet4DNES9YQ1GX9
released
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HiC on WT ZF Embryos Collected at 24h 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

18 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES9YQ1GX9
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIW9QZTFV
152.05m
27.099%
41.28%
31.622%
Experiment
4DNEX6ZQZZQW
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIKZHGCCD
9.69m
18.149%
57.896%
23.955%
Experiment
4DNEX1F5J4YD
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIUARTFQG
15.89m
25.472%
46.921%
27.607%
Experiment
4DNEXIPC1I1O
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIQGFQBWA
10.3m
22.289%
48.529%
29.182%
Experiment
4DNEXCB3R6EZ
Bio Rep 4, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI8T75HB5
42.19m
21.919%
48.673%
29.408%
Experiment
4DNEX7FKGK3H
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI9JPU7DN
9.28m
31.69%
34.134%
34.176%
Experiment
4DNEXMY5JQ6I
Bio Rep 5, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI9J7FOYK
64.71m
32.322%
32.458%
35.22%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES9YQ1GX9
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI8H9ECLI
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX6ZQZZQW
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI9DZP8ZW
22.26m
10.384%
14.014%
2.743%
29.331%
0.835%
Experiment
4DNEX1F5J4YD
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIXLWJR13
45.2m
13.044%
16.385%
2.94%
32.473%
0.754%
Experiment
4DNEXIPC1I1O
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIJXYST8C
19.82m
6.173%
17.929%
9.205%
14.74%
1.102%
Experiment
4DNEXCB3R6EZ
Bio Rep 4, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIL28ZDHL
272.04m
5.962%
15.576%
45.324%
17.632%
0.355%
Experiment
4DNEX7FKGK3H
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIHOONM37
20.74m
9.017%
21.381%
2.306%
22.531%
1.037%
Experiment
4DNEXMY5JQ6I
Bio Rep 5, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIRFVBDIP
270.81m
8.137%
19.095%
25.684%
23.19%
0.582%