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MSAViewer specifications


Unique identifier OMICS_12343
Name MSAViewer
Interface Web user interface
Restrictions to use None
Input format FASTA or CLUSTAL
Programming languages Javascript
Computer skills Basic
Stability Stable
Maintained Yes



  • person_outline Tatya Goldberg <>

Publication for MSAViewer

MSAViewer in publications

PMCID: 5884625
PMID: 29554130
DOI: 10.1371/journal.ppat.1006882

[…] structural differences between the three clusters of aig1 family proteins in strain hm-1, entire sequences of the 28 aig1 family proteins were aligned using mafft (v7.351b) [], and visualized using msaviewer [] or ncbi multiple sequence alignment viewer 1.6.0., 3d-models of aig1 domains in ehi_176590, ehi_129470, and ehi_022500 were constructed using forte [], with modeller (9v8) based […]

PMCID: 5771210
PMID: 29379518
DOI: 10.3389/fpls.2017.02267

[…] with clustalw alignment and the maximum likelihood method from all sequences and orthologs extracted by gramene biomart (tello-ruiz et al., ). multiple alignments from clustalw were visualized with msaviewer (yachdav et al., )., two recessive allelic bm mutants, bm40-1 and bm40-2, isolated from the sorghum pedigreed mutant library (xin et al., ; jiao et al., ) were used to identify the causal […]

PMCID: 5596340
PMID: 28900024
DOI: 10.1128/mBio.01017-17

[…] the newick utilities () script nw_rename. visualization of the alignment ( and ) to confirm the presence of the first cxxck/cxxch and highly conserved kxqh/kxrh catalytic site was completed with the msaviewer () online using the unculled nrfa alignment as input., evaluation of predicted nrfa genes in sar406 and bins 50/48. (a) phylogenetic tree of predicted nrfa genes. additional taxa are from […]

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MSAViewer institution(s)
Bioinformatik - I12, TUM, Garching, Germany; Biosof LLC, New York, NY, USA; Department of Systems Biology, Harvard Medical School, Boston, MA, USA; Institute of Structure and Molecular Biology, University College London, London, UK; Biological Chemistry and Drug Discovery, University of Dundee, Dundee, UK; Lawrence Berkeley National Laboratory, Berkeley, CA, USA
MSAViewer funding source(s)
This work was supported by a grant from the German Federal Ministry for Education and Research (BMBF), Ernst Ludwig Ehrlich Studienwerk and the Google Summer of Code program sponsored by Google Inc.

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