ExperimentSetReplicate

ExperimentSet4DNESGHJXSRM
released
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HiC on WT ZF Embryos Collected at 2.25h post-fertilization, less than 30% mitotic

   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

14 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESGHJXSRM
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIQJDQHPE
41.47m
22.085%
48.736%
29.18%
Experiment
4DNEXKD2VGYF
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIDKGDZOQ
12.52m
20.075%
53.07%
26.855%
Experiment
4DNEXNRSZ3EN
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIJWZY4XV
2.62m
22.94%
48.229%
28.831%
Experiment
4DNEXCEVT88D
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIZELO51Q
6.19m
35.055%
23.237%
41.708%
Experiment
4DNEXHV5MKHY
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIBLL2GE1
16.66m
15.391%
60.644%
23.965%
Experiment
4DNEX6QYDPD6
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI9QAO9NV
3.48m
37.661%
21.842%
40.497%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESGHJXSRM
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIYVFZBFV
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXKD2VGYF
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFITRYYZYK
153.62m
28.57%
8.703%
22.184%
32.396%
0.224%
Experiment
4DNEXNRSZ3EN
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIX7L9QFI
31.75m
28.216%
9.194%
22.059%
32.267%
0.203%
Experiment
4DNEXCEVT88D
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI4JKKTXL
193.32m
6.026%
16.685%
57.475%
16.611%
0.089%
Experiment
4DNEXHV5MKHY
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIEYDZK4K
210.26m
14.342%
14.627%
49.397%
13.71%
0.196%
Experiment
4DNEX6QYDPD6
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI3WZNG2Y
202.6m
7.215%
15.059%
54.105%
21.905%
0.049%