Detailed Information on Publication Record
2022
Vivern – A Virtual Environment for Multiscale Visualization and Modeling of DNA Nanostructures
KUŤÁK, David, Matias Nicolás SELZER, Jan BYŠKA, María Luján GANUZA, Ivan BARIŠIĆ et. al.Basic information
Original name
Vivern – A Virtual Environment for Multiscale Visualization and Modeling of DNA Nanostructures
Authors
KUŤÁK, David (203 Czech Republic, belonging to the institution), Matias Nicolás SELZER, Jan BYŠKA (203 Czech Republic, belonging to the institution), María Luján GANUZA, Ivan BARIŠIĆ, Barbora KOZLÍKOVÁ (203 Czech Republic, belonging to the institution) and Haichao MIAO
Edition
IEEE Transactions on Visualization and Computer Graphics, 2022, 1077-2626
Other information
Language
English
Type of outcome
Článek v odborném periodiku
Field of Study
10201 Computer sciences, information science, bioinformatics
Country of publisher
United States of America
Confidentiality degree
není předmětem státního či obchodního tajemství
References:
Impact factor
Impact factor: 5.200
RIV identification code
RIV/00216224:14330/22:00124972
Organization unit
Faculty of Informatics
UT WoS
000873836400062
Keywords in English
Virtual reality; abstraction; DNA origami; nanostructures; visualization; focus+context; interaction; in silico modeling; nanotechnology; multiscale; magic scale lens
Tags
International impact, Reviewed
Změněno: 27/3/2023 17:03, RNDr. Pavel Šmerk, Ph.D.
Abstract
V originále
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 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.
Links
MUNI/A/1230/2021, interní kód MU |
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MUNI/A/1549/2020, interní kód MU |
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