ExperimentSetReplicate

ExperimentSet4DNESG4K7J7U
released
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HiC on WT ZF Embryos Collected at 4h 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
4DNESG4K7J7U
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIQJWCQYO
157.23m
21.217%
49.72%
29.063%
Experiment
4DNEXLUMBSUY
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIWCJGE8U
17.34m
2.013%
95.106%
2.881%
Experiment
4DNEXXRXH4YK
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIHPNVU2F
10.26m
14.062%
67.959%
17.979%
Experiment
4DNEX54P9YF1
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIPAGF84E
12.27m
17.966%
57.907%
24.126%
Experiment
4DNEX1KDLF1B
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI2AF8GB9
9.01m
24.6%
41.997%
33.403%
Experiment
4DNEXP8TU8EA
Bio Rep 4, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIZ1G7BKG
51.2m
24.195%
42.663%
33.141%
Experiment
4DNEXVLYTHAR
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI8GJ6PIT
9.72m
25.959%
38.191%
35.85%
Experiment
4DNEXMURPQQZ
Bio Rep 5, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI6MXZ8ZL
47.43m
25.797%
38.512%
35.691%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESG4K7J7U
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI49AKWWI
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXLUMBSUY
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIMRBWHY8
29.34m
4.036%
15.734%
5.119%
16.023%
0.909%
Experiment
4DNEXXRXH4YK
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIK46YPTV
23.09m
9.936%
13.742%
4.414%
27.484%
0.789%
Experiment
4DNEX54P9YF1
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIMEXBS3E
36.5m
17.816%
14.322%
1.847%
32.392%
0.729%
Experiment
4DNEX1KDLF1B
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIWQJQ6NV
20.65m
12.964%
21.909%
3.722%
17.748%
1.053%
Experiment
4DNEXP8TU8EA
Bio Rep 4, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI85XOIPR
265.76m
12.571%
18.774%
29.678%
19.711%
0.489%
Experiment
4DNEXVLYTHAR
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI64EU8JJ
22.82m
13.526%
19.607%
3.923%
20.381%
1.009%
Experiment
4DNEXMURPQQZ
Bio Rep 5, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIXUTVWUT
264.59m
12.704%
16.931%
29.301%
23.138%
0.437%