ExperimentSetReplicate

ExperimentSet4DNESVZFWQZX
released
View JSON

HiC on WT ZF Embryos Collected at 4h post-fertilization , treated with SGC

   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 
Chemical
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
4DNESVZFWQZX
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI97FCBN1
184.01m
28.53%
24.888%
46.582%
Experiment
4DNEX4SCYGOL
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIRUPUC1H
57.47m
31.402%
23.699%
44.899%
Experiment
4DNEXRQW72FG
Bio Rep 1, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI87QF69R
60.3m
30.135%
22.631%
47.234%
Experiment
4DNEXZGORY81
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI7WIHPG4
56.68m
24.381%
27.843%
47.776%
Experiment
4DNEX5BHUL5I
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIW3V1YDH
9.56m
25.738%
28.753%
45.509%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESVZFWQZX
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIDS9WTNL
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX4SCYGOL
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI9MQ6RE9
149.57m
11.192%
15.527%
11.098%
23.763%
0.938%
Experiment
4DNEXRQW72FG
Bio Rep 1, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIF4VCANJ
161.19m
10.347%
15.318%
11.726%
25.197%
0.902%
Experiment
4DNEXZGORY81
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFILBK3CDJ
158.15m
12.269%
14.395%
10.933%
26.561%
0.869%
Experiment
4DNEX5BHUL5I
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIEXGKWGJ
120.11m
13.85%
10.302%
29.905%
37.987%
0.198%