ExperimentSetReplicate

ExperimentSet4DNESWMLWNGZ
released
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HiC on WT ZF Embryos Collected at 4h post-fertilization, treated with Flavopiridol

   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

22 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESWMLWNGZ
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI138NTBS
160.84m
14.402%
60.945%
24.653%
Experiment
4DNEXY1FY9ZK
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIEYU2YUV
15.4m
4.208%
92.123%
3.669%
Experiment
4DNEXV1P5VXE
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIO1YU6MX
11.81m
4.167%
88.399%
7.434%
Experiment
4DNEX8K6WR2T
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFISRNIKV2
10.09m
19.015%
54.801%
26.184%
Experiment
4DNEX76BCHTC
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIPZ5BA5W
9.72m
15.606%
71.131%
13.263%
Experiment
4DNEXE926SGX
Bio Rep 4, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIVLAIYFG
27.01m
11.911%
76.018%
12.07%
Experiment
4DNEXHWWIQ7T
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFI73LTP78
8.67m
23.588%
45.98%
30.432%
Experiment
4DNEXTBR3CXV
Bio Rep 5, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIWZT6MUB
25.33m
18.548%
56.631%
24.82%
Experiment
4DNEX9ZRDDHE
Bio Rep 6, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Contact List-replicate (pairs)
4DNFIPBL3ZXR
52.8m
16.337%
41.824%
41.839%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESWMLWNGZ
Multiple Experiments
File
Contact Matrix (mcool)
4DNFICH7YL8Y
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXY1FY9ZK
Bio Rep 1, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIGXJ9U6X
26.04m
4.967%
15.308%
4.249%
16.317%
0.912%
Experiment
4DNEXV1P5VXE
Bio Rep 2, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI9Z3PN6G
25.91m
7.512%
13.298%
3.751%
29.884%
0.734%
Experiment
4DNEX8K6WR2T
Bio Rep 3, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI512GJOZ
27.58m
17.153%
15.901%
1.724%
28.615%
0.792%
Experiment
4DNEX76BCHTC
Bio Rep 4, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIXV29BIP
22.5m
5.449%
18.303%
18.259%
14.781%
0.827%
Experiment
4DNEXE926SGX
Bio Rep 4, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIL9NTS2U
313.33m
6.805%
15.401%
49.261%
19.912%
0.182%
Experiment
4DNEXHWWIQ7T
Bio Rep 5, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFISNC8RLV
20.96m
7.624%
17.589%
12.761%
20.679%
0.89%
Experiment
4DNEXTBR3CXV
Bio Rep 5, Tec Rep 2
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFI46GAWPJ
300.25m
7.345%
13.689%
40.267%
30.261%
0.189%
Experiment
4DNEX9ZRDDHE
Bio Rep 6, Tec Rep 1
in situ Hi-C on Zebrafish Embryo with MboI
File
Alignments (bam)
4DNFIV3L4FEB
166.91m
10.625%
14.381%
19.675%
23.684%
0.755%