MizBee protocols

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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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Maintainer


  • person_outline Miriah Meyer <>

Publication for MizBee

MizBee in pipeline

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

[…] 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 […]


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MizBee in publications

 (5)
PMCID: 5443641
PMID: 28560331
DOI: 10.1126/sciadv.1602404

[…] (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 ()., we sequenced the genomes of a total of 72 individuals (71 males and 1 s. melanogaster female) from nine capuchino species: 12 s. nigrorufa (nig), 12 s. pileata (pil), 12 s. melanogaster […]

PMCID: 4506587
PMID: 26187050
DOI: 10.1186/s12862-015-0380-7

[…] 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 […]

PMCID: 4061007
PMID: 24937645
DOI: 10.1371/journal.pone.0099427

[…] 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., genotyping by sequencing of the f2 population produced a total […]

PMCID: 4171679
PMID: 23585583
DOI: 10.1093/bib/bbt021

[…] 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 […]

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

[…] as it may be a natural feature of the underlying data to which this approach is more sensitive than those of the other entries. the primary visualization of the results was presented as a circos []/mizbee [] type circular interaction diagram, with overlaid metadata. the rf-ace machine-learning engine was unable to predict the likely change of affected status conveyed by the bonus question snp, […]


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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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