BENEŠ, Petr, Petr MEDEK and Jiří SOCHOR. Computation of more channels in protein molecules. In Proceedings of Visual Computing for Biomedicine. Aire-la-Ville, Switzerland: Eurographics Association, 2008, p. 45-51. ISBN 978-3-905674-13-2.
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Basic information
Original name Computation of more channels in protein molecules
Name in Czech Metody výpočtu více tunelů v molekulách proteinů
Authors BENEŠ, Petr (203 Czech Republic, guarantor), Petr MEDEK (203 Czech Republic) and Jiří SOCHOR (203 Czech Republic).
Edition Aire-la-Ville, Switzerland, Proceedings of Visual Computing for Biomedicine, p. 45-51, 7 pp. 2008.
Publisher Eurographics Association
Other information
Original language English
Type of outcome Proceedings paper
Field of Study 20206 Computer hardware and architecture
Country of publisher Switzerland
Confidentiality degree is not subject to a state or trade secret
RIV identification code RIV/00216224:14330/08:00024968
Organization unit Faculty of Informatics
ISBN 978-3-905674-13-2
Keywords in English more channels;channel computation;protein;molecule
Tags channel computation, molecule, more channels, PROTEIN
Tags International impact, Reviewed
Changed by Changed by: RNDr. Petr Beneš, Ph.D., učo 60865. Changed: 25/1/2010 12:24.
Abstract
In the process of designing drugs it is crucial to perform various analyses of cavities and channels in protein molecules. Chemists also require that more than one ideal channel be computed in a static protein molecule. Three basic approaches for computation of more than a single channel were introduced in recent publications. However, these approaches have several disadvantages. In this paper we propose a new adaptive method for computation of more channels. This new method is piloted on a real data and results are compared with channels identified by chemists as relevant. The comparison indicates that this method is a significant improvement over previous methods, as the method computes less number of similar and biochemically insignificant channels.
Abstract (in Czech)
V procesu návrhu léků je potřeba provádět různé analýzy dutin a tunelů v molekulách proteinů. Chemici vyžadují, aby byl vypočítán více než jeden tunel pro každou molekulu. Základní přístupy byly formulovány v nedávných publikacích. Tyto přístupy mají několik nevýhod. V této publikaci prezentujeme novou adaptivní metodu pro výpočet více tunelů. Nová metoda je otestována na reálných datech a výsledky jsou porovnány s anotovanými daty. Porovnání naznačuje, že tato metoda je výrazným zlepšením předchozích metod, protože počítá menší množství podobných biochemicky nedůležitých tunelů.
Links
GA201/07/0927, research and development projectName: Vizualizace proteinových struktur
Investor: Czech Science Foundation, Visualization of protein structures
LC06008, research and development projectName: Centrum počítačové grafiky (Acronym: CPG)
Investor: Ministry of Education, Youth and Sports of the CR, Center of Computer Graphics
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