Journal articles on the topic 'Structures interaction'

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1

Patil, K. S., and Ajit K. Kakade. "Seismic Response of R.C. Structures With Different Steel Bracing Systems Considering Soil - Structure Interaction." Journal of Advances and Scholarly Researches in Allied Education 15, no. 2 (April 1, 2018): 411–13. http://dx.doi.org/10.29070/15/56856.

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2

Gaifullin, A. M., D. A. Gadzhiev, V. V. Zhvick, and A. V. Zoubtsov. "Vortical structures interaction." Journal of Physics: Conference Series 1268 (July 2019): 012016. http://dx.doi.org/10.1088/1742-6596/1268/1/012016.

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3

Wellens, Peter, M. J. A. Borsboom, and M. R. A. Van Gent. "3D SIMULATION OF WAVE INTERACTION WITH PERMEABLE STRUCTURES." Coastal Engineering Proceedings 1, no. 32 (January 31, 2011): 28. http://dx.doi.org/10.9753/icce.v32.structures.28.

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COMFLOW is a general 3D free-surface flow solver. The main objective in this paper is to extend the solver with a permeable flow model to simulate wave interaction with rubble-mound breakwaters. The extended Navier-Stokes equations for permeable flow are presented and we show the discretization of these equations as they are implemented in COMFLOW. An analytical solution for the reflection coefficient of a permeable structure is derived and the numerical model is compared to the solution. In addition, a validation study has been performed, in which we compare the numerical results with an experiment. In the experiment, pressures and surface elevations are measured inside a permeable structure. The measurements are represented well by the simulation results. At the end, a 3D application of the model is shown.
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4

Kulharia, Mahesh. "Geometrical and electro-static determinants of protein-protein interactions." Bioinformation 17, no. 10 (October 31, 2021): 851–60. http://dx.doi.org/10.6026/97320630017851.

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Protein-protein interactions (PPI) are pivotal to the numerous processes in the cell. Therefore, it is of interest to document the analysis of these interactions in terms of binding sites, topology of the interacting structures and physiochemical properties of interacting interfaces and the of forces interactions. The interaction interface of obligatory protein-protein complexes differs from that of the transient interactions. We have created a large database of protein-protein interactions containing over100 thousand interfaces. The structural redundancy was eliminated to obtain a non-redundant database of over 2,265 interaction interfaces. Therefore, it is of interest to document the analysis of these interactions in terms of binding sites, topology of the interacting structures and physiochemical properties of interacting interfaces and the offorces interactions. The residue interaction propensity and all of the rest of the parametric scores converged to a statistical indistinguishable common sub-range and followed the similar distribution trends for all three classes of sequence-based classifications PPInS. This indicates that the principles of molecular recognition are dependent on the preciseness of the fit in the interaction interfaces. Thus, it reinforces the importance of geometrical and electrostatic complementarity as the main determinants for PPIs.
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Mushin, Ilana, and Simona Pekarek Doehler. "Linguistic structures in social interaction." Interactional Linguistics 1, no. 1 (May 6, 2021): 2–32. http://dx.doi.org/10.1075/il.21008.mus.

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Abstract In this introductory paper to the inaugural volume of the journal Interactional Linguistics, we raise the question of what a theory of language might look like once we factor time into explanations of regularities in linguistic phenomena. We first present a historical overview that contextualises interactional approaches within the broader field of linguistics, and then focus on temporality as a key dimension of language use in interaction. By doing so, we discuss issues of emergence and its consequences for constituency and dependency, and of projection and its relation to action formation within and across languages. Based on video-recorded conversational data from French and Garrwa (Australian), we seek to illustrate how the discipline of linguistics can be enriched by attending to the temporal deployment of patterns of language use, and how this may in turn modify what we understand to be language structure.
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Malenov, Dusan, and Snezana Zaric. "Parallel interactions of aromatic and heteroaromatic molecules." Chemical Industry 70, no. 6 (2016): 649–59. http://dx.doi.org/10.2298/hemind151009003m.

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Parallel interactions of aromatic and heteroaromatic molecules are very important in chemistry and biology. In this review, recent findings on preferred geometries and interaction energies of these molecules are presented. Benzene and pyridine were used as model systems for studying aromatic and heteroaromatic molecules, respectively. Searches of Cambridge Structural Database show that both aromatic and heteroaromatic molecules prefer interacting at large horizontal displacements, even though previous calculations showed that stacking interactions (with offsets of about 1.5 ?) are the strongest. Calculations of interaction energies at large horizontal displacements revealed that the large portion of interaction energy is preserved even when two molecules do not overlap. These substantial energies, as well as the possibility of forming larger supramolecular structures, make parallel interactions at large horizontal displacements more frequent in crystal structures than stacking interactions.
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7

DOLOCAN, ANDREI, VOICU OCTAVIAN DOLOCAN, and VOICU DOLOCAN. "APPLICATION OF A NEW HAMILTONIAN OF INTERACTION TO THREE-DIMENSIONAL STRUCTURES." International Journal of Modern Physics B 18, no. 09 (April 10, 2004): 1351–68. http://dx.doi.org/10.1142/s0217979204024707.

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Using a new Hamiltonian of interaction we have calculated the cohesive energy in three-dimensional structures. We have found the news dependences of this energy on the distance between the atoms. The obtained results are in a good agreement with experimental data in ionic, covalent and noble gases crystals. The coupling constant γ between the interacting field and the atoms is somewhat smaller than unity in ionic crystals and is some larger than unity in covalent and noble gases crystals. The formulae found by us are general and may be applied, also, to the other types of interactions, for example, gravitational interactions.
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8

Qin, Jing, and Christian M. Reidys. "On Topological RNA Interaction Structures." Journal of Computational Biology 20, no. 7 (July 2013): 495–513. http://dx.doi.org/10.1089/cmb.2012.0282.

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9

Zheng, S., and C. T. Sun. "DELAMINATION INTERACTION IN LAMINATED STRUCTURES." Engineering Fracture Mechanics 59, no. 2 (January 1998): 225–40. http://dx.doi.org/10.1016/s0013-7944(97)00120-3.

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10

Liao, Wen‐Gen. "Hydrodynamic Interaction of Flexible Structures." Journal of Waterway, Port, Coastal, and Ocean Engineering 111, no. 4 (January 1985): 719–31. http://dx.doi.org/10.1061/(asce)0733-950x(1985)111:4(719).

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11

Gilat, G. "Chiral interaction in protein structures." Molecular Engineering 1, no. 2 (1991): 161–78. http://dx.doi.org/10.1007/bf00420052.

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12

Zhang, Jie, Yuan Liang Sun, Zhi Jia Xu, and Yuan Li. "An Interaction Process Model for Virtual Objects Based on Interaction Structures." Applied Mechanics and Materials 328 (June 2013): 117–22. http://dx.doi.org/10.4028/www.scientific.net/amm.328.117.

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The virtual objects interactions depend on a huge number of human-computer definitions in virtual environment. A natural observation is that associated geometric structures between virtual objects can use to enhance autonomous interaction abilities, which will reduce the time-consuming manual operations. Based on this observation, the paper firstly studied the nature of relationship between interaction structures and interaction behaviors, and proposed a concept Interaction Feature Pair (IFP) to represent the interaction structures. And then an interaction process model for virtual objects based on IFP was proposed, which gives a feasible method for virtual objects to interact autonomously. Finally, an assembly simulation system is developed using this model and an example is given to prove the validity of the model.
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13

Taneda, Akito, and Kengo Sato. "A Web Server for Designing Molecular Switches Composed of Two Interacting RNAs." International Journal of Molecular Sciences 22, no. 5 (March 8, 2021): 2720. http://dx.doi.org/10.3390/ijms22052720.

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The programmability of RNA–RNA interactions through intermolecular base-pairing has been successfully exploited to design a variety of RNA devices that artificially regulate gene expression. An in silico design for interacting structured RNA sequences that satisfies multiple design criteria becomes a complex multi-objective problem. Although multi-objective optimization is a powerful technique that explores a vast solution space without empirical weights between design objectives, to date, no web service for multi-objective design of RNA switches that utilizes RNA–RNA interaction has been proposed. We developed a web server, which is based on a multi-objective design algorithm called MODENA, to design two interacting RNAs that form a complex in silico. By predicting the secondary structures with RactIP during the design process, we can design RNAs that form a joint secondary structure with an external pseudoknot. The energy barrier upon the complex formation is modeled by an interaction seed that is optimized in the design algorithm. We benchmarked the RNA switch design approaches (MODENA+RactIP and MODENA+RNAcofold) for the target structures based on natural RNA-RNA interactions. As a result, MODENA+RactIP showed high design performance for the benchmark datasets.
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14

Xiang, Jiansheng, John-Paul Latham, Axelle Vire, Elena Anastasaki, and Christopher C. Pain. "COUPLED FLUIDITY/Y3D TECHNOLOGY AND SIMULATION TOOLS FOR NUMERICAL BREAKWATER MODELLING." Coastal Engineering Proceedings 1, no. 33 (December 14, 2012): 66. http://dx.doi.org/10.9753/icce.v33.structures.66.

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FEMDEM modelling which combines the multi-body particle interaction and motion modelling (i.e. Discrete Element Model, DEM) with the ability to model internal deformation of arbitrary shape (Finite Element Model, FEM) has been applied to breakwater models. There are two versions of a FEMDEM solver developed; Y3D_D is for deformable materials and is required for dynamic and static stress analysis and Y3D-R is the rigid version often used to numerically construct the armour unit packs. This paper also reports the placement protocols: POSITIT. FEMDEM modelling deals with solids interactions and is one modelling component that is to be coupled to other modelling technologies e.g. CFD, interface tracking, wave models, porous media etc. so that the key fluid-solid interactions can be modelled in a full scale virtual breakwater alongside work on scaled hydraulic laboratory models and prototype structures. The latest developments of two-way coupled interactions of waves with coastal structures are also described in this paper.
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15

Shihe, Liu, and Liang Zaichao. "Interaction of turbulent coherent structures and small scale structures." Applied Mathematics and Mechanics 16, no. 12 (December 1995): 1175–83. http://dx.doi.org/10.1007/bf02466988.

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16

Lan, Yuan-Jyh, Tai-Wen Hsu, and Ching-Yu Chen. "ANALYSIS OF WAVE INTERACTION WITH SUBMERGED ADJACENT PORO-ELASTIC BREAKWATERS." Coastal Engineering Proceedings 1, no. 33 (October 15, 2012): 31. http://dx.doi.org/10.9753/icce.v33.structures.31.

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In this study, the problem of wave interaction with two closely submerged adjacent porous elastic breakwaters is investigated theoretically. The porous elastic breakwaters are assumed to be homogeneous, isotropic and elastic. Lan and Lee’s (2010) analytical solution is extended to the problem subject to proper boundary conditions. Using general solutions for each region and the matching boundary conditions, a set of simultaneous equations is thus developed and solved numerically. The present analytic solutions compare favorably with simplified cases of the poro-elastic submerged breakwater. Changes of the width of two adjacent breakwaters, the permeable coefficient effect on wave profile, and the effect of materials and configurations of breakwaters on wave variation are the focus of the present paper. The results show that a large amount of energy dissipates when the adjacent structures both have the same soft material and dimension of width with higher permeability. Different materials and shapes of structures could significantly influence the reflection coefficient.
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17

Yuksel, Yalcin, Tugce Yuksel, Esin Cevik, Berna Ayat Aydoğan, Burak Aydogan, Anil Guner, Yesim Celikoglu, and Fulya Islek. "SEA WALL and BEACH PROFILE INTERACTION IN RUN-UP REGION." Coastal Engineering Proceedings 1, no. 34 (October 2, 2014): 13. http://dx.doi.org/10.9753/icce.v34.structures.13.

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18

Zanuttigh, Barbara, Sara Mizar Formentin, and Jentsje W. Van der Meer. "ADVANCES IN MODELLING WAVE-STRUCTURE INTERACTION THROUGH ARTIFICIAL NEURAL NETWORKS." Coastal Engineering Proceedings 1, no. 34 (October 30, 2014): 69. http://dx.doi.org/10.9753/icce.v34.structures.69.

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19

Tan, Remziye Ilayda, Yalçın Yuksel, and YeÅŸim Celikoglu. "PROPELLER JET FLOW, PILE SUPPORTED PIERS AND SEA BED INTERACTION." Coastal Engineering Proceedings, no. 35 (June 23, 2017): 45. http://dx.doi.org/10.9753/icce.v35.structures.45.

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In maritime trade, from all over the world, transportation performed over the seas has been rapidly increasing due to high technological improvements leading the ships to have huge power and high speeds. The approach of even the big ships to the piers is now done by using the ship’s own engine power without the help of tugs because of the operation and economic reasons. However; this has been observed to cause local scour around the piers. Local scour commonly defined as the scour which is occurred in the immediate vicinity of the hydraulic structures due to the direct impact of the structure on the flow. It is very important to reduce local scour caused by ships propeller jets. A thorough understanding of the erosion of the bed due to local scour remains a challenge since it is associated with a highly turbulent flow field. The propeller jet has 3D flow area and high velocities. The erosion problem around the berthing structures due to propeller jet can occur in three ways. These are; a) On a slope, b) At the bottom of vertical wall, c) Around piles. In this study, propeller jet flow was considered to investigate scour formations around piles with non-cohesive sediment bed. The scour mechanism induced by propeller jet with and without pile conditions were investigated experimentally and their comparisons were made. Because there was not enough study for the scouring process for pile type berthing structures under propeller jet flow in the literature.
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20

Medina, Pablo, Eric Goles, Roberto Zarama, and Sergio Rica. "Self-Organized Societies: On the Sakoda Model of Social Interactions." Complexity 2017 (2017): 1–16. http://dx.doi.org/10.1155/2017/3548591.

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We characterize the behavior and the social structures appearing from a model of general social interaction proposed by Sakoda. The model consists of two interacting populations in a two-dimensional periodic lattice with empty sites. It contemplates a set of simple rules that combine attitudes, ranges of interactions, and movement decisions. We analyze the evolution of the 45 different interaction rules via a Potts-like energy function which drives the system irreversibly to an equilibrium or a steady state. We discuss the robustness of the social structures, dynamical behaviors, and the existence of spatial long range order in terms of the social interactions and the equilibrium energy.
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21

Aloy, Patrick, and Robert B. Russell. "Understanding and Predicting Protein Assemblies with 3D Structures." Comparative and Functional Genomics 4, no. 4 (2003): 410–15. http://dx.doi.org/10.1002/cfg.310.

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Protein interactions are central to most biological processes, and are currently the subject of great interest. Yet despite the many recently developed methods for interaction discovery, little attention has been paid to one of the best sources of data: complexes of known three-dimensional (3D) structure. Here we discuss how such complexes can be used to study and predict protein interactions and complexes, and to interrogate interaction networks proposed by methods such as two-hybrid screens or affinity purifications.
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22

Massah Fard, Maryam, Saeid Pourzeynali, and Seyed Ahmad Lashteh Neshaei. "SEISMIC ANALYSIS OF QUAY WALLS BY CONSIDERING SOIL-WATER-STRUCTURE INTERACTION." Coastal Engineering Proceedings, no. 35 (June 23, 2017): 38. http://dx.doi.org/10.9753/icce.v35.structures.38.

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A quay wall is a gravity wall structure having the dual functions of providing shore protection against light to moderate wave attack and a berthing face for ships. In the present study, nonlinear dynamic behavior of the quay walls is studied under the action of earthquake excitations by taking into account the soil-water-structure interaction. For this purpose, plane strain analysis of the wall is performed for both horizontal and vertical components of earthquake records; and the maximum displacements and stresses at critical points of the quay wall are obtained for different values of the wall slenderness ratio. From the numerical results, it is found that considering the vertical component of the ground motion besides the horizontal one in a linear analysis has a reduction effect on the quay wall seismic responses in comparison with that of the horizontal component alone. Moreover, it is found that nonlinear characteristics of soil, when the soil-water-structure interaction is taken into account, has more catastrophic effect on the performance of these walls in comparison with that of the linear one.
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23

Serralta, Fernanda Barcellos. "Uncovering Interaction Structures in a Brief Psychodynamic Psychotherapy." Paidéia (Ribeirão Preto) 26, no. 64 (August 2016): 255–63. http://dx.doi.org/10.1590/1982-43272664201613.

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Abstract Interaction structures refers to the repetitive ways of interaction between the patient-therapist dyad over the course of treatment. This construct is operationalized by the repeated application of the Psychotherapy Process Q-Set (PQS) to psychotherapy sessions. Studies in this line of research have so far focused only on long-term treatment. The present study examines whether interaction structures can be detected empirically in short-term psychotherapies. All sessions (N = 31) of a successful case of brief psychodynamic psychotherapy were coded with the Psychotherapy Process Q-Set (PQS). The application of Q type factor analysis procedures with varimax rotation revealed five interaction structures: resistance, alliance, facing depression, expectation of change, and introspection and hearing. The analysis of variation of these structures over the course of the treatment showed that these interactions are nonlinear, may be positively or negatively protruding in different sessions, or be predominant at some treatment phase.
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Jensen, Bjarne, Erik Damgaard Christensen, and Niels Gjøl Jacobsen. "SIMULATION OF EXTREME EVENTS OF OBLIQUE WAVE INTERACTION WITH POROUS BREAKWATER STRUCTURES." Coastal Engineering Proceedings 1, no. 34 (October 30, 2014): 1. http://dx.doi.org/10.9753/icce.v34.structures.1.

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25

Gao, Feng, Clive Mingham, and Derek Causon. "SIMULATION OF EXTREME WAVE INTERACTION WITH MONOPILE MOUNTS FOR OFFSHORE WIND TURBINES." Coastal Engineering Proceedings 1, no. 33 (October 15, 2012): 22. http://dx.doi.org/10.9753/icce.v33.structures.22.

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Extreme wave run-up and impacts on monopile foundations may cause unexpected damage to offshore wind farm facilities and platforms. To assess the forces due to wave run-up, the distribution of run-up around the pile and the maximum wave run-up height need to be known. This paper describes a numerical model AMAZON-3D study of wave run-up and wave forces on offshore wind turbine monopile foundations, including both regular and irregular waves. Numerical results of wave force for regular waves are in good agreement with experimental measurement and theoretical results, while the maximum run-up height are little higher than predicted by linear theory and some empirical formula. Some results for irregular wave simulation are also presented.
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Wu, Yun-Ta, Shih-Chun Hsiao, and Guan-Shiue Chen. "SOLITARY WAVE INTERACTION WITH A SUBMERGED PERMEABLE BREAKWATER: EXPERIMENT AND NUMERICAL MODELING." Coastal Engineering Proceedings 1, no. 33 (October 18, 2012): 30. http://dx.doi.org/10.9753/icce.v33.structures.30.

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We study the interactions between a non-breaking solitary wave and a submerged permeable breakwater experimentally and numerically. The particle image velocimetry (PIV) technique was employed to measure instantaneous free surface displacements and velocity fields in the vicinity of the porous media. The porous media, consisted of uniform glass-made spheres, was mounted on the seafloor. Quantitative mean properties were obtained by ensemble averaging 30 repeated instantaneous measurements. In addition, two different numerical considerations are taken to simulate the experiments. One is to model an idealized volume-averaged porous media using a two-dimensional (2D) volume of fluid (VOF)-type model. This model is based on the Volume-Averaged Reynolds-Averaged Navier–Stokes (VARANS) equations coupled with the non-linear k-ε turbulence closure solver. The other is to model the real porous breakwater constructed by spheres using a three-dimensional (3D) VOF-type model. This model solves 3D incompressible Navier–Stokes equations with Large-eddy-simulation (LES) model. The comparisons were performed between measurements, 2D and 3D numerical results for the time histories of the free surface elevation, instantaneous free surface displacements and corresponding velocity properties around the permeable object. Fairly good agreements were obtained. The verified 3D numerical results were used to trace the trajectories of fluid particle around the porous media to help understand the possible sediment movements in suspended loads. Also, the 2D numerical model is used to estimate the energy reflection, transmission and dissipation using the energy integral method by varying the aspect ratio and the grain size of the permeable obstacle.
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Palemón-Arcos, Leonardo, Alec Torres-Freyermuth, Gabriela Medellín, Christian M. Appendini, Juan A. Álvarez-Arellano, Yuriko Gutiérrez-Can, Horacio Alvarado-Vigil, and Marco A. Hernández-Hernandez. "Determinación de la vida útil de una protección costera a través de la interacción oleaje-estructura." Tecnología y ciencias del agua 09, no. 4 (September 26, 2018): 01–24. http://dx.doi.org/10.24850/j-tyca-2018-04-01.

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28

Golenishchev-Kutuzov, V. A., A. V. Golenishchev-Kutuzov, R. I. Kalimullin, and A. A. Potapov. "Photon-phonon interaction on periodic structures." Bulletin of the Russian Academy of Sciences: Physics 76, no. 7 (July 2012): 731–32. http://dx.doi.org/10.3103/s1062873812070131.

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29

Buccino, Mariano, and Luca Martinelli. "Interaction between Waves and Maritime Structures." Water 12, no. 12 (December 10, 2020): 3472. http://dx.doi.org/10.3390/w12123472.

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Understanding the interaction between waves and maritime structures (IWMS) has been a primary concern for humans since ancient times, when they started sailing oceans and defending land from flooding and erosion [...]
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Cui, Yujun. "Soil–atmosphere interaction in earth structures." Journal of Rock Mechanics and Geotechnical Engineering 14, no. 1 (February 2022): 35–49. http://dx.doi.org/10.1016/j.jrmge.2021.11.004.

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31

Prados, Francisco J. R., Alejandro León Salas, and Juan Carlos Torres. "Haptic Interaction with Elastic Volumetric Structures." International Journal of Creative Interfaces and Computer Graphics 3, no. 1 (January 2012): 63–73. http://dx.doi.org/10.4018/jcicg.2012010105.

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Considerable efforts have been done to produce realistic results when simulating interaction with elastic materials. Many applications such as surgery planning, medical training, or virtual sculpting would benefit from a plausible simulation scenario. However, even though many works have proposed very satisfactory results, realistic simulation of deformable bodies is still an open issue. One of the challenges when designing a realistic elastic body simulation is the huge amount of data that needs to be processed. For the inner properties of the material are crucial when it comes to reproduce the elastic problem, the simulation naturally calls for volumetric information. In this paper the authors propose a technique to interactively deform 3D images, such as those acquired by a CT scanner. While producing a physically plausible haptic feedback, deformation and visualization algorithms produce an efficient and natural feeling. Using a free form deformation structure as a wrapper, it is possible to deform complex structures at high frame rates, independently of the size of the volume.
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Norris, Andrew N. "Acoustic interaction with wedge‐shaped structures." Journal of the Acoustical Society of America 98, no. 5 (November 1995): 2909. http://dx.doi.org/10.1121/1.414252.

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Anna P., Soldusova, and Prudnikov Pavel V. "Bilayer Magnetic Structures with Dipolar Interaction." Journal of Siberian Federal University. Mathematics & Physics 11, no. 1 (March 2018): 46–49. http://dx.doi.org/10.17516/1997-1397-2018-11-1-46-49.

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34

Chakrabarti, P., and D. Pal. "Electrophile–nucleophile interaction in protein structures." Acta Crystallographica Section A Foundations of Crystallography 52, a1 (August 8, 1996): C246. http://dx.doi.org/10.1107/s010876739608957x.

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35

Andersen, Jørgen E., Fenix W. D. Huang, Robert C. Penner, and Christian M. Reidys. "Topology of RNA-RNA Interaction Structures." Journal of Computational Biology 19, no. 7 (July 2012): 928–43. http://dx.doi.org/10.1089/cmb.2011.0308.

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36

Blumer, W., and N. Ari. "NEMP-interaction with plane multilayer structures." IEE Proceedings A Science, Measurement and Technology 138, no. 3 (1991): 199. http://dx.doi.org/10.1049/ip-a-3.1991.0028.

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37

McIver, P. "Wave interaction with arrays of structures." Applied Ocean Research 24, no. 3 (June 2002): 121–26. http://dx.doi.org/10.1016/s0141-1187(02)00034-2.

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38

Schwabe, Rainer. "Optimal designs for hierarchical interaction structures." Journal of Statistical Planning and Inference 70, no. 1 (July 1998): 181–90. http://dx.doi.org/10.1016/s0378-3758(97)00174-2.

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39

Van Nghi, VU, and LEE Changhoon. "Solitary Wave Interaction with Porous Structures." Procedia Engineering 116 (2015): 834–41. http://dx.doi.org/10.1016/j.proeng.2015.08.371.

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40

Harvey, M. "The NN interaction and baryon structures." Canadian Journal of Physics 67, no. 12 (December 1, 1989): 1182–85. http://dx.doi.org/10.1139/p89-198.

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A brief review is given of the author's research, with collaborators, on the nontopological chiral soliton model with interpretation in terms of the Nambu–Jona-Lasinio model and restrictions determined using the Dyakanov–Petrov ansatz. A discussion of early results on the effects of polarization of the Dirac sea with profile functions for mean fields is recorded.
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Kang, Ji-Hun, Dai-Sik Kim, and Minah Seo. "Terahertz wave interaction with metallic nanostructures." Nanophotonics 7, no. 5 (May 24, 2018): 763–93. http://dx.doi.org/10.1515/nanoph-2017-0093.

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AbstractUnderstanding light interaction with metallic structures provides opportunities of manipulation of light, and is at the core of various research areas including terahertz (THz) optics from which diverse applications are now emerging. For instance, THz waves take full advantage of the interaction to have strong field enhancement that compensates their relatively low photon energy. As the THz field enhancement have boosted THz nonlinear studies and relevant applications, further understanding of light interaction with metallic structures is essential for advanced manipulation of light that will bring about subsequent development of THz optics. In this review, we discuss THz wave interaction with deep sub-wavelength nano structures. With focusing on the THz field enhancement by nano structures, we review fundamentals of giant field enhancement that emerges from non-resonant and resonant interactions of THz waves with nano structures in both sub- and super- skin-depth thicknesses. From that, we introduce surprisingly simple description of the field enhancement valid over many orders of magnitudes of conductivity of metal as well as many orders of magnitudes of the metal thickness. We also discuss THz interaction with structures in angstrom scale, by reviewing plasmonic quantum effect and electron tunneling with consequent nonlinear behaviors. Finally, as applications of THz interaction with nano structures, we introduce new types of THz molecule sensors, exhibiting ultrasensitive and highly selective functionalities.
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Toma, Milan, Rosalyn Chan-Akeley, Jonathan Arias, Gregory D. Kurgansky, and Wenbin Mao. "Fluid–Structure Interaction Analyses of Biological Systems Using Smoothed-Particle Hydrodynamics." Biology 10, no. 3 (March 2, 2021): 185. http://dx.doi.org/10.3390/biology10030185.

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Due to the inherent complexity of biological applications that more often than not include fluids and structures interacting together, the development of computational fluid–structure interaction models is necessary to achieve a quantitative understanding of their structure and function in both health and disease. The functions of biological structures usually include their interactions with the surrounding fluids. Hence, we contend that the use of fluid–structure interaction models in computational studies of biological systems is practical, if not necessary. The ultimate goal is to develop computational models to predict human biological processes. These models are meant to guide us through the multitude of possible diseases affecting our organs and lead to more effective methods for disease diagnosis, risk stratification, and therapy. This review paper summarizes computational models that use smoothed-particle hydrodynamics to simulate the fluid–structure interactions in complex biological systems.
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43

Timsit, Youri, and Dino Moras. "Cruciform structures and functions." Quarterly Reviews of Biophysics 29, no. 4 (December 1996): 279–307. http://dx.doi.org/10.1017/s0033583500005862.

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In this paper, a structure-function analysis of B-DNA self-fitting is reviewed in the light of recent oligonucleotide crystal structures. Their crystal packings provided a high-resolution view of B-DNA helices closely and specifically fitted by groove-backbone interaction, a natural and biologically relevant manner to assemble B-DNA helices. In revealing that new properties of the DNA molecule emerge during condensation, these crystallographic studies have pointed to the biological importance of DNA—DNA interactions.
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44

ZHU, ZHENGWEI, ANDREY TOVCHIGRECHKO, TATIANA BARONOVA, YING GAO, DOMINIQUE DOUGUET, NICHOLAS O'TOOLE, and ILYA A. VAKSER. "LARGE-SCALE STRUCTURAL MODELING OF PROTEIN COMPLEXES AT LOW RESOLUTION." Journal of Bioinformatics and Computational Biology 06, no. 04 (August 2008): 789–810. http://dx.doi.org/10.1142/s0219720008003679.

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Structural aspects of protein–protein interactions provided by large-scale, genome-wide studies are essential for the description of life processes at the molecular level. A methodology is developed that applies the protein docking approach (GRAMM), based on the knowledge of experimentally determined protein–protein structures (DOCKGROUND resource) and properties of intermolecular energy landscapes, to genome-wide systems of protein interactions. The full sequence-to-structure-of-complex modeling pipeline is implemented in the Genome Wide Docking Database (GWIDD) resource. Protein interaction data are imported to GWIDD from external datasets of experimentally determined interaction networks. Essential information is extracted and unified to form the GWIDD database. Structures of individual interacting proteins in the database are retrieved (if available) or modeled, and protein complex structures are predicted by the docking program. All protein sequence, structure, and docking information is conveniently accessible through a Web interface.
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45

Каргин, Nikolay Kargin, Щадилова, and I. Shchadilova. "Informational Services for Communicative Social Structures." Modern Communication Studies 5, no. 5 (October 17, 2016): 8–14. http://dx.doi.org/10.12737/21925.

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Paper considers methodological basis which provides a forming of a overall theoretical knowledge about communication processes in social-economy structure of a modern society. As a basic structure is taken natural science law – which describes process of the internal informational interaction of a systems differing in their structure type and complexity value. Paper considers evolutional processes of interactions between systems of different grades from simply and determinate to thin and probabilistic (which uses different types of informational resources). Justifies key differences of interaction process of a person to person type of social structures, in dealing with different types and complexity scale problem solving.
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46

Suetsugu, Shiro, Shusaku Kurisu, and Tadaomi Takenawa. "Dynamic Shaping of Cellular Membranes by Phospholipids and Membrane-Deforming Proteins." Physiological Reviews 94, no. 4 (October 2014): 1219–48. http://dx.doi.org/10.1152/physrev.00040.2013.

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All cellular compartments are separated from the external environment by a membrane, which consists of a lipid bilayer. Subcellular structures, including clathrin-coated pits, caveolae, filopodia, lamellipodia, podosomes, and other intracellular membrane systems, are molded into their specific submicron-scale shapes through various mechanisms. Cells construct their micro-structures on plasma membrane and execute vital functions for life, such as cell migration, cell division, endocytosis, exocytosis, and cytoskeletal regulation. The plasma membrane, rich in anionic phospholipids, utilizes the electrostatic nature of the lipids, specifically the phosphoinositides, to form interactions with cytosolic proteins. These cytosolic proteins have three modes of interaction: 1) electrostatic interaction through unstructured polycationic regions, 2) through structured phosphoinositide-specific binding domains, and 3) through structured domains that bind the membrane without specificity for particular phospholipid. Among the structured domains, there are several that have membrane-deforming activity, which is essential for the formation of concave or convex membrane curvature. These domains include the amphipathic helix, which deforms the membrane by hemi-insertion of the helix with both hydrophobic and electrostatic interactions, and/or the BAR domain superfamily, known to use their positively charged, curved structural surface to deform membranes. Below the membrane, actin filaments support the micro-structures through interactions with several BAR proteins as well as other scaffold proteins, resulting in outward and inward membrane micro-structure formation. Here, we describe the characteristics of phospholipids, and the mechanisms utilized by phosphoinositides to regulate cellular events. We then summarize the precise mechanisms underlying the construction of membrane micro-structures and their involvements in physiological and pathological processes.
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Bozorgnia, Mehrdad, Jiin-Jen Lee, and Frederic Raichlen. "WAVE STRUCTURE INTERACTION: ROLE OF ENTRAPPED AIR ON WAVE IMPACT AND UPLIFT FORCES." Coastal Engineering Proceedings 1, no. 32 (January 26, 2011): 57. http://dx.doi.org/10.9753/icce.v32.structures.57.

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In present paper, a numerical wave load model based on compressible two-phase Navier Stokes type equations is used to evaluate hydrodynamic forces exerted on I-10 bridge across Mobil Bay which was extensively damaged during Hurricane Katrina. The volume of fluid method (VOF) is used in the model to describe dynamic free surface which is capable of simulating complex discontinuous free surface associated with wave-deck interactions. Special emphasis was put on investigating the role of entrapped air on hydrodynamic forces exerted on bridge superstructure. Numerical simulation results indicate that air entrapment can significantly amplify uplift forces applied to the bridge superstructure. To mitigate hydrodynamic forces, effectiveness of airvents is investigated. It has been shown that airvents can significantly damp out wave energy and can effectively reduce uplift forces.
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48

Rivera, Jose L., Pedro Navarro-Santos, Roberto Guerra-Gonzalez, and Enrique Lima. "Interaction of Refractory Dibenzothiophenes and Polymerizable Structures." International Journal of Polymer Science 2014 (2014): 1–11. http://dx.doi.org/10.1155/2014/103945.

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We carried out first principles calculations to show that polymerizable structures containing hydroxyl (alcoholic chain) and amino groups are suitable to form stable complexes with dibenzothiophene (DBT) and its alkyl derivates. These sulfur pollutants are very difficult to eliminate through traditional catalytic processes. Spontaneous and exothermic interactions at 0 K primarily occur through the formation of stable complexes of organosulfur molecules with monomeric structures by hydrogen bonds. The bonds are formed between the sulfur atom and the hydrogen of the hydroxyl group; additional hydrogen bonds are formed between the hydrogen atoms of the organosulfur molecule and the nitrogen atoms of the monomers. We vary the number of methylene groups in the alcoholic chain containing the hydroxyl group of the monomer and find that the monomeric structure with four methylene groups has the best selectivity towards the interaction with the methyl derivates with reference to the interaction with DBT. Even this study does not consider solvent and competitive adsorption effects; our results show that monomeric structures containing amino and hydroxyl groups can be used to develop adsorbents to eliminate organosulfur pollutants from oil and its derivates.
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Sun, Chang-Liang, Fu Ding, Yan-Li Ding, and Chang-Sheng Wang. "The nonadditivity of stacking interactions in adenine–thymine and guanine–cytosine stacked structures: Study by MP2 and SCS-MP2 calculations." Journal of Theoretical and Computational Chemistry 14, no. 05 (August 2015): 1550037. http://dx.doi.org/10.1142/s0219633615500376.

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The nonadditivity of stacking interactions in stacked structures of adenine–thymine and guanine–cytosine base pairs is investigated by MP2 and SCS-MP2 calculations with 6-311++G** and aug-cc-pvdz basis sets. The calculation results indicate that the intermolecular distances in the multi-stacked structures do not become shorter obviously as the stacked structure added. The middle stacking interaction energies in the multi-stacked structures also become weaker than that of dimer structures. It is found that the total stacking interaction energies of the trimer and tetramer stacked structures do not increase proportionally. Based on the results, we suggest that there is negative cooperativity of the stacking interactions in the adenine–thymine and guanine–cytosine stacked structures.
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50

Wardell, James L., John N. Low, Janet M. S. Skakle, and Christopher Glidewell. "Isomeric N-(iodophenyl)nitrobenzamides form different three-dimensional framework structures." Acta Crystallographica Section B Structural Science 62, no. 5 (September 18, 2006): 931–43. http://dx.doi.org/10.1107/s0108768106029053.

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The isomeric N-(iodophenyl)nitrobenzamides, C13H9IN2O3, all form different three-dimensional framework structures. Molecules of N-(2-iodophenyl)-3-nitrobenzamide (II) are linked by a combination of N—H...O and C—H...O hydrogen bonds and a two-centre iodo...carbonyl interaction. The supramolecular structure of N-(2-iodophenyl)-4-nitrobenzamide (III) is built from one N—H...O and two C—H...O hydrogen bonds, but short I...O contacts are absent from the structure. In N-(3-iodophenyl)-2-nitrobenzamide (IV), which crystallizes with Z′ = 2 in space group P21, the structure contains two N—H...O hydrogen bonds, four C—H...O hydrogen bonds, two two-centre iodo...nitro interactions and an aromatic π...π stacking interaction. The structure of N-(3-iodophenyl)-3-nitrobenzamide (V) contains one N—H...O hydrogen bond and three C—H...O hydrogen bonds, together with a two-centre iodo...nitro interaction and an aromatic π...π stacking interaction, while in N-(3-iodophenyl)-4-nitrobenzamide (VI), the combination of one N—H...O hydrogen bond and two C—H...O hydrogen bonds is augmented not only by a two-centre iodo...nitro interaction and an aromatic π...π stacking interaction, but also by a dipolar carbonyl...carbonyl interaction. In the supramolecular structure of N-(4-iodophenyl)-4-nitrobenzamide (IX), which crystallizes with Z′ = 2 in space group P\overline 1, there are two N—H...O hydrogen bonds, four C—H...O hydrogen bonds and two three-centre iodo...nitro interactions.
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