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dc.contributor.author
Kutak, David
dc.contributor.author
Selzer, Matias Nicolas
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Byska, Jan
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Ganuza, María Luján
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Barisic, Ivan
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Kozlikova, Barbora
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Miao, Haichao
dc.date.available
2021-12-21T13:59:15Z
dc.date.issued
2021-08-26
dc.identifier.citation
Kutak, David; Selzer, Matias Nicolas; Byska, Jan; Ganuza, María Luján; Barisic, Ivan; et al.; Vivern a virtual environment for multiscale visualization and modeling of DNA nanostructures; IEEE Computer Society; IEEE Transactions on Visualization and Computer Graphics; 2021; 26-8-2021; 1-14
dc.identifier.issn
1077-2626
dc.identifier.uri
http://hdl.handle.net/11336/149109
dc.description.abstract
DNA nanostructures offer promising applications, particularly in the biomedical domain, as they can be used for targeted drug delivery, construction of nanorobots, or as a basis for molecular motors. One of the most prominent techniques for assembling these structures is DNA origami. Nowadays, desktop applications are used for the in silico design of such structures. However, as such structures are often spatially complex, their assembly and analysis are complicated. Since virtual reality (VR) was proven to be advantageous for such spatial-related tasks and there are no existing VR solutions focused on this domain, we propose Vivern, a VR application that allows domain experts to design and visually examine DNA origami nanostructures. Our approach presents different abstracted visual representations of the nanostructures, various color schemes, and an ability to place several DNA nanostructures and proteins in one environment, thus allowing for the detailed analysis of complex assemblies. We also present two novel examination tools, the Magic Scale Lens and the DNA Untwister, that allow the experts to visually embed different representations into local regions to preserve the context and support detailed investigation. To showcase the capabilities of our solution, prototypes of novel nanodevices conceptualized by our collaborating experts, such as DNA-protein hybrid structures and DNA origami superstructures, are presented. Finally, the results of two rounds of evaluations are summarized. They demonstrate the advantages of our solution, especially for scenarios where current desktop tools are very limited, while also presenting possible future research directions.
dc.format
application/pdf
dc.language.iso
eng
dc.publisher
IEEE Computer Society
dc.rights
info:eu-repo/semantics/openAccess
dc.rights.uri
https://creativecommons.org/licenses/by/2.5/ar/
dc.subject
ABSTRACTION
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DATA VISUALIZATION
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DNA
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DNA ORIGAMI
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FOCUS+CONTEXT
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IN SILICO MODELING
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INTERACTION
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LATTICES
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MAGIC SCALE LENS
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MULTISCALE
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NANOSCALE DEVICES
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NANOSTRUCTURES
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NANOSTRUCTURES
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NANOTECHNOLOGY
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SOLID MODELING
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THREE-DIMENSIONAL DISPLAYS
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VIRTUAL REALITY
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VISUALIZATION
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Ciencias de la Computación
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Ciencias de la Computación e Información
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CIENCIAS NATURALES Y EXACTAS
dc.title
Vivern a virtual environment for multiscale visualization and modeling of DNA nanostructures
dc.type
info:eu-repo/semantics/article
dc.type
info:ar-repo/semantics/artículo
dc.type
info:eu-repo/semantics/publishedVersion
dc.date.updated
2021-12-03T19:25:35Z
dc.identifier.eissn
1941-0506
dc.journal.volume
2021
dc.journal.pagination
1-14
dc.journal.pais
Estados Unidos
dc.journal.ciudad
Los Alamitos
dc.description.fil
Fil: Kutak, David. Masaryk University; República Checa
dc.description.fil
Fil: Selzer, Matias Nicolas. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Instituto de Ciencias e Ingeniería de la Computación; Argentina. Universidad Nacional del Sur. Departamento de Ciencias e Ingenieria de la Computacion. Laboratorio de Investigación y Desarrollo en Visualización yComputación Gráfica; Argentina
dc.description.fil
Fil: Byska, Jan. Masaryk University; República Checa
dc.description.fil
Fil: Ganuza, María Luján. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Bahía Blanca. Instituto de Ciencias e Ingeniería de la Computación; Argentina. Universidad Nacional del Sur. Departamento de Ciencias e Ingenieria de la Computacion. Laboratorio de Investigación y Desarrollo en Visualización yComputación Gráfica; Argentina
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Fil: Barisic, Ivan. Austrian Institute of Technology; Austria
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Fil: Kozlikova, Barbora. Masaryk University; República Checa
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Fil: Miao, Haichao. Austrian Institute of Technology; Austria
dc.journal.title
IEEE Transactions on Visualization and Computer Graphics
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/url/https://ieeexplore.ieee.org/document/9523759/
dc.relation.alternativeid
info:eu-repo/semantics/altIdentifier/doi/http://dx.doi.org/10.1109/TVCG.2021.3106328
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