An Approach Toward Emulating Molecular Interaction with a Graph

2006 ◽  
Vol 59 (12) ◽  
pp. 869 ◽  
Author(s):  
Hideaki Suzuki
Keyword(s):  
Random Walk ◽  
Molecular Interaction ◽  
Hard Sphere ◽  
Dimensional Space ◽  
Three Dimensional ◽  
Atomic Clusters ◽  
Experimental Results ◽  
Random Walk Simulation ◽  
Mathematical Graph ◽  
Three Dimensional Space

Network artificial chemistry (NAC) uses a mathematical graph to emulate molecular interaction in a solvent. To emulate molecules' movement in a three-dimensional space, rewiring rules for NAC graphs’ edges must be designed to enable the edges to imitate the relations between molecules or atomic clusters. Our research formulated the ‘network energy’ representing this constraint and rewired the NAC graph to minimize the required energy. Experimental results for the NAC rewiring are compared with a hard-sphere random walk simulation.

scholarly journals Cloth Simulation with Adaptive Force Model in Three-Dimensional Space

2018 ◽  
Vol 13 (1) ◽  
pp. 155892501801300
Author(s):  
Xuan Luo ◽  
Gaoming Jiang ◽  
Honglian Cong ◽  
Yan Zhao
Keyword(s):  
Human Body ◽  
Dimensional Space ◽  
Three Dimensional ◽  
Mathematical Expression ◽  
Experimental Results ◽  
Force Model ◽  
Mathematical Form ◽  
Cloth Simulation ◽  
3D Space ◽  
Three Dimensional Space

An adaptive force model is proposed to achieve better performance between the accuracy and the speed of cloth simulation in three-dimensional (3D) space. The proposed force model can be expressed with a general mathematical form demonstrated by the distance between the clothing and the human body. This paper defines how a continuous adaptive area can be established with a shape “block”. It is clarified that, within a specific block, a force model is expressed with the gravity of the clothing, the forces of the adjacent blocks and the anti-force of the human body to the block. In this manner, the force model of the desired clothing can be obtained through a general mathematical expression. The simulations and experimental results demonstrate that the acceptable clothing simulation in 3D space can be achieved with higher speed by saving about 20.2% runtime, and the efficiency of the proposed scheme can be verified.

Extension of the Spatial PDI Model to Three Dimensions

1997 ◽  
Vol 84 (1) ◽  
pp. 176-178
Author(s):  
Frank O'Brien
Keyword(s):  
Population Density ◽  
Dimensional Space ◽  
Finite Lattice ◽  
Three Dimensional ◽  
Upper Bounds ◽  
Three Dimensions ◽  
Lower And Upper Bounds ◽  
Density Index ◽  
Three Dimensional Space

The author's population density index ( PDI) model is extended to three-dimensional distributions. A derived formula is presented that allows for the calculation of the lower and upper bounds of density in three-dimensional space for any finite lattice.

A Peptoid with Extended Shape in Water

2019 ◽  
Author(s):  
Jumpei Morimoto ◽  
Yasuhiro Fukuda ◽  
Takumu Watanabe ◽  
Daisuke Kuroda ◽  
Kouhei Tsumoto ◽  
...  
Keyword(s):  
Spectroscopic Analysis ◽  
Dimensional Space ◽  
Three Dimensional ◽  
Biomolecular Recognition ◽  
Biological Application ◽  
New Class ◽  
Proteolytic Resistance ◽  
Pharmacokinetic Properties ◽  
Optically Pure ◽  
Three Dimensional Space

<div> <div> <div> <p>“Peptoids” was proposed, over decades ago, as a term describing analogs of peptides that exhibit better physicochemical and pharmacokinetic properties than peptides. Oligo-(N-substituted glycines) (oligo-NSG) was previously proposed as a peptoid due to its high proteolytic resistance and membrane permeability. However, oligo-NSG is conformationally flexible and is difficult to achieve a defined shape in water. This conformational flexibility is severely limiting biological application of oligo-NSG. Here, we propose oligo-(N-substituted alanines) (oligo-NSA) as a new peptoid that forms a defined shape in water. A synthetic method established in this study enabled the first isolation and conformational study of optically pure oligo-NSA. Computational simulations, crystallographic studies and spectroscopic analysis demonstrated the well-defined extended shape of oligo-NSA realized by backbone steric effects. The new class of peptoid achieves the constrained conformation without any assistance of N-substituents and serves as an ideal scaffold for displaying functional groups in well-defined three-dimensional space, which leads to effective biomolecular recognition. </p> </div> </div> </div>

scholarly journals Quantitative image analysis of microbial communities with BiofilmQ

2021 ◽  
Author(s):  
Raimo Hartmann ◽  
Hannah Jeckel ◽  
Eric Jelli ◽  
Praveen K. Singh ◽  
Sanika Vaidya ◽  
...  
Keyword(s):  
Image Analysis ◽  
Microbial Communities ◽  
Dimensional Space ◽  
Three Dimensional ◽  
Software Tool ◽  
Image Cytometry ◽  
Quantitative Image Analysis ◽  
Space And Time ◽  
Quantitative Image ◽  
Three Dimensional Space

AbstractBiofilms are microbial communities that represent a highly abundant form of microbial life on Earth. Inside biofilms, phenotypic and genotypic variations occur in three-dimensional space and time; microscopy and quantitative image analysis are therefore crucial for elucidating their functions. Here, we present BiofilmQ—a comprehensive image cytometry software tool for the automated and high-throughput quantification, analysis and visualization of numerous biofilm-internal and whole-biofilm properties in three-dimensional space and time.

scholarly journals How Can I Grab That?

i-com ◽  
2020 ◽  
Vol 19 (2) ◽  
pp. 67-85
Author(s):  
Matthias Weise ◽  
Raphael Zender ◽  
Ulrike Lucke
Keyword(s):  
Virtual Reality ◽  
User Experience ◽  
Dimensional Space ◽  
Three Dimensional ◽  
Advantages And Disadvantages ◽  
Multiple Dimensions ◽  
Application Developers ◽  
Three Dimensional Space

AbstractThe selection and manipulation of objects in Virtual Reality face application developers with a substantial challenge as they need to ensure a seamless interaction in three-dimensional space. Assessing the advantages and disadvantages of selection and manipulation techniques in specific scenarios and regarding usability and user experience is a mandatory task to find suitable forms of interaction. In this article, we take a look at the most common issues arising in the interaction with objects in VR. We present a taxonomy allowing the classification of techniques regarding multiple dimensions. The issues are then associated with these dimensions. Furthermore, we analyze the results of a study comparing multiple selection techniques and present a tool allowing developers of VR applications to search for appropriate selection and manipulation techniques and to get scenario dependent suggestions based on the data of the executed study.

scholarly journals Planning model of a group UAV flight in three-dimensional space

2021 ◽  
Vol 1111 (1) ◽  
pp. 012034
Author(s):  
N A Maksimov ◽  
K Zhigalov ◽  
A V Gorban ◽  
I V Ignatev
Keyword(s):  
Dimensional Space ◽  
Three Dimensional ◽  
Planning Model ◽  
Three Dimensional Space
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