KLEIN, Tobias, Ludovic AUTIN, Barbora KOZLÍKOVÁ, David S. GOODSELL, Arthur OLSON, Eduard M. GRÖLLER a Ivan VIOLA. Instant Construction and Visualization of Crowded Biological Environments. IEEE Transactions on Visualization and Computer Graphics. 2018, roč. 24, č. 1, s. 862-872. ISSN 1077-2626. doi:10.1109/TVCG.2017.2744258.
Další formáty:   BibTeX LaTeX RIS
Základní údaje
Originální název Instant Construction and Visualization of Crowded Biological Environments
Autoři KLEIN, Tobias (276 Německo, garant), Ludovic AUTIN (250 Francie), Barbora KOZLÍKOVÁ (203 Česká republika, domácí), David S. GOODSELL (840 Spojené státy), Arthur OLSON (840 Spojené státy), Eduard M. GRÖLLER (40 Rakousko) a Ivan VIOLA (703 Slovensko).
Vydání IEEE Transactions on Visualization and Computer Graphics, 2018, 1077-2626.
Další údaje
Originální jazyk angličtina
Typ výsledku Článek v odborném periodiku
Obor 10201 Computer sciences, information science, bioinformatics
Stát vydavatele Spojené státy
Utajení není předmětem státního či obchodního tajemství
Impakt faktor Impact factor: 3.780
Kód RIV RIV/00216224:14330/18:00102034
Organizační jednotka Fakulta informatiky
Doi http://dx.doi.org/10.1109/TVCG.2017.2744258
UT WoS 000418038400085
Klíčová slova anglicky Interactive modeling;population;biological data;interactive visualization
Příznaky Mezinárodní význam, Recenzováno
Změnil Změnil: RNDr. Pavel Šmerk, Ph.D., učo 3880. Změněno: 3. 5. 2019 14:54.
Anotace
We present the first approach to integrative structural modeling of the biological mesoscale within an interactive visual environment. These complex models can comprise up to millions of molecules with defined atomic structures, locations, and interactions. Their construction has previously been attempted only within a non-visual and non-interactive environment. Our solution unites the modeling and visualization aspect, enabling interactive construction of atomic resolution mesoscale models of large portions of a cell. We present a novel set of GPU algorithms that build the basis for the rapid construction of complex biological structures. These structures consist of multiple membrane-enclosed compartments including both soluble molecules and fibrous structures. The compartments are defined using volume voxelization of triangulated meshes. For membranes, we present an extension of the Wang Tile concept that populates the bilayer with individual lipids. Soluble molecules are populated within compartments using the Halton sequence for their distribution. Fibrous structures, such as RNA or actin filaments, are created by self-avoiding random walks. Resulting overlaps of molecules are resolved by a forced-based system. Our approach opens new possibilities to the world of interactive construction of cellular compartments. We demonstrate its effectiveness by showcasing scenes of different scale and complexity that comprise blood plasma, mycoplasma, and HIV.
VytisknoutZobrazeno: 19. 3. 2024 05:27