ExperimentSetReplicate

ExperimentSet4DNESV5PGOUC
released
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HiC on WT ZF Embryos Collected at 2.25h post-fertilization, less than 30% mitotic, dechorionated 1cell

   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

12 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESV5PGOUC
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIJS95BR2
157.5m
48.088%
19.433%
32.48%
Experiment
4DNEXAJC5KI3
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI7TO35CK
71.06m
48.532%
19.166%
32.302%
Experiment
4DNEX8SDCNL2
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIP52MFTQ
63.5m
47.867%
18.814%
33.319%
Experiment
4DNEX4IFV1D1
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI63A4IKP
22.94m
47.323%
21.97%
30.707%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESV5PGOUC
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIXYTVEQN
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXAJC5KI3
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIWHB17E8
281.68m
40.581%
10.404%
7.034%
16.755%
0.672%
Experiment
4DNEX8SDCNL2
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIZVTID1G
176.39m
26.533%
13.884%
5.835%
17.748%
0.931%
Experiment
4DNEX4IFV1D1
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIN42W68F
185.49m
71.421%
4.785%
2.398%
9.027%
0.389%