MizBee statistics

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Citations per year

Number of citations per year for the bioinformatics software tool MizBee
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Tool usage distribution map

This map represents all the scientific publications referring to MizBee per scientific context
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Popular tool citations

chevron_left Synteny visualization Circular genome visualization chevron_right
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Protocols

MizBee specifications

Information


Unique identifier OMICS_00943
Name MizBee
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Input data TSV,CSV
Operating system Unix/Linux, Mac OS, Windows
Computer skills Medium
Stability Stable
Source code URL http://www.cs.utah.edu/~miriah/mizbee/Source_files/MizBee.zip
Maintained Yes

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Documentation


Maintainer


  • person_outline Miriah Meyer

Publication for MizBee

MizBee citations

 (6)
library_books

Repeated divergent selection on pigmentation genes in a rapid finch radiation

2017
Sci Adv
PMCID: 5443641
PMID: 28560331
DOI: 10.1126/sciadv.1602404

[…] ssembly (Taeniopygia_guttata-3.2.4) using the Satsuma synteny module from the Satsuma version 3.1 pipeline (). We assigned the scaffold to the chromosome with the top hit and inspected the results in MizBee (). […]

library_books

Characterization of fossilized relatives of the White Spot Syndrome Virus in genomes of decapod crustaceans

2015
BMC Evol Biol
PMCID: 4506587
PMID: 26187050
DOI: 10.1186/s12862-015-0380-7

[…] Synteny analysis was based on the comparison of the positions of the annotated genes in the Metopaulias scaffolds of viral origin and their orthologs in the WSSV genome, and visualized in the program MizBee []. To avoid interference of potential mis-assembly, scaffold III was conservatively broken at the low-coverage region (see “” in Results) and at two locations with insertions of large interspe […]

call_split

Comparative Mapping of the Wild Perennial Glycine latifolia and Soybean (G. max) Reveals Extensive Chromosome Rearrangements in the Genus Glycine

2014
PLoS One
PMCID: 4061007
PMID: 24937645
DOI: 10.1371/journal.pone.0099427
call_split See protocol

[…] . vulgaris chromosomes, G. latifolia SNP-containing sequences and G. max gene models were aligned to P. vulgaris chromosomes (http://www.phytozome.net/commonbean.php) using BLAST and visualized with MizBee . When G. latifolia sequences aligned at more than one location, the most syntenic location was chosen for these analyses. […]

library_books

What google maps can do for biomedical data dissemination: examples and a design study

2013
BMC Res Notes
PMCID: 3658873
PMID: 23642009
DOI: 10.1186/1756-0500-6-179

[…] Hierarchical Clustering Explorer (HCE) [], and Spotfire [], systems for pathway and network analysis like Cytoscape [], VisANT [], Ingenuity [] and Patika [], or genome viewers such as Cinteny [] and Mizbee []. Most such systems are aimed at complex data exploration and analysis and have associated overhead costs such as deploying, learning and operating the systems, data formatting, and adjusting […]

library_books

Visualizing time related data in biology, a review

2013
Brief Bioinform
PMCID: 4171679
PMID: 23585583
DOI: 10.1093/bib/bbt021

[…] t of the time component []. Colouring of conserved amino acids in the former case, and dendograms, in the latter, are the classical depictions for this kind of data. Tools like Circos [], Vista [] or MizBee [] extend this analysis to whole-genome level, enabling tracking of genome evolution by highlighting sequence and structural variation features or comparative genomics by aligning genomes of di […]

library_books

An eQTL biological data visualization challenge and approaches from the visualization community

2012
BMC Bioinformatics
PMCID: 3355334
PMID: 22607587
DOI: 10.1186/1471-2105-13-S8-S8

[…] effect of each SNP on each RNA expression level, ordered by genomic locus, and superimposed with the difference in allele frequency between affected and unaffected individuals, as well as a Circos []/Mizbee [] inspired circular display of two locus interactions. Although the entry identified relatively few of the spiked-in SNPs specifically, it did describe many features of the expression interact […]


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MizBee institution(s)
Harvard University, Boston, MA, USA
MizBee funding source(s)
Supported in part by the Initiative in Innovative Computing at Harvard University.

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