scholarly journals A generic systems-theoretic approach to identify biological networks capable of adaptation

2021 ◽  
Author(s):  
Priyan Bhattacharya ◽  
Karthik Raman ◽  
Arun Kumar Tangirala
Keyword(s):  
Systems Theory ◽  
Biological Networks ◽  
Living Organism ◽  
Design Principles ◽  
Theoretic Approach ◽  
Third Order ◽  
The Core ◽  
Node Network ◽  
Design Requirements ◽  
Theoretical Results

Constructing biological networks capable of performing specific biological functionalities has been of sustained interest in synthetic biology. Adaptation is one such ubiquitous functional property, which enables every living organism to sense a change in its surroundings and return to its operating condition prior to the disturbance. In this paper, we present a generic systems theory-driven method for designing adaptive protein networks. First, we translate the necessary qualitative conditions for adaptation to mathematical constraints using the language of systems theory, which we then map back as 'design requirements' for the underlying networks. We go on to prove that a protein network with different input--output nodes (proteins) needs to be at least of third-order in order to provide adaptation. Next, we show that the necessary design principles obtained for a three-node network in adaptation consist of negative feedback or a feed-forward realization. Interestingly, the design principles obtained by the proposed method remain the same for a network of arbitrary size and connectivity. Finally, we prove that the motifs discovered for adaptation are non-retroactive for a canonical downstream connection. This result explains how complex biological networks achieve robustness while keeping the core motifs unchanged in the context of a particular functionality. We corroborate our theoretical results with detailed and thorough numerical simulations. Overall, our results present a generic, systematic and robust framework for designing various kinds of biological networks.

scholarly journals The Dynamics of Musical Participation

2021 ◽  
pp. 102986492098831
Author(s):  
Andrea Schiavio ◽  
Pieter-Jan Maes ◽  
Dylan van der Schyff
Keyword(s):  
Dynamical System ◽  
Dynamical Systems ◽  
Systems Theory ◽  
Dynamical Systems Theory ◽  
Coordination Dynamics ◽  
Musical Experience ◽  
The Core ◽  
Interactive Dynamics ◽  
Interdisciplinary Scholarship ◽  
Core Features

In this paper we argue that our comprehension of musical participation—the complex network of interactive dynamics involved in collaborative musical experience—can benefit from an analysis inspired by the existing frameworks of dynamical systems theory and coordination dynamics. These approaches can offer novel theoretical tools to help music researchers describe a number of central aspects of joint musical experience in greater detail, such as prediction, adaptivity, social cohesion, reciprocity, and reward. While most musicians involved in collective forms of musicking already have some familiarity with these terms and their associated experiences, we currently lack an analytical vocabulary to approach them in a more targeted way. To fill this gap, we adopt insights from these frameworks to suggest that musical participation may be advantageously characterized as an open, non-equilibrium, dynamical system. In particular, we suggest that research informed by dynamical systems theory might stimulate new interdisciplinary scholarship at the crossroads of musicology, psychology, philosophy, and cognitive (neuro)science, pointing toward new understandings of the core features of musical participation.

Bogdanov–Takens and Triple Zero Bifurcations of Coupled van der Pol–Duffing Oscillators with Multiple Delays

2017 ◽  
Vol 27 (09) ◽  
pp. 1750133 ◽  
Author(s):  
Xia Liu ◽  
Tonghua Zhang
Keyword(s):  
Delay Differential Equations ◽  
Time Delays ◽  
Normal Forms ◽  
Multiple Delays ◽  
Third Order ◽  
Van Der Pol ◽  
Normal Form Theory ◽  
Form Theory ◽  
Delay Differential ◽  
Theoretical Results

In this paper, the Bogdanov–Takens (B–T) and triple zero bifurcations are investigated for coupled van der Pol–Duffing oscillators with [Formula: see text] symmetry, in the presence of time delays due to the intrinsic response and coupling. Different from previous works, third order unfolding normal forms associated with B–T and triple zero bifurcations are needed, which are obtained by using the normal form theory of delay differential equations. Numerical simulations are also presented to illustrate the theoretical results.

scholarly journals Core–periphery models for graphs based on their δ-hyperbolicity: An example using biological networks

2016 ◽  
Vol 11 (1) ◽  
pp. 40-57 ◽  
Author(s):  
Hend Alrasheed ◽  
Feodor F Dragan
Keyword(s):  
Biological Networks ◽  
Extended Version ◽  
Conference Paper ◽  
General Graph ◽  
The Core ◽  
Bending Property ◽  
Minimum Cover ◽  
New Perspective ◽  
Graph Form ◽  
Peak Model

Hyperbolicity is a global property of graphs that measures how close their structures are to trees in terms of their distances. It embeds multiple properties that facilitate solving several problems that found to be hard in the general graph form. In this paper, we investigate the hyperbolicity of graphs not only by considering Gromov’s notion of δ-hyperbolicity but also by analyzing its relationship to other graph’s parameters. This new perspective allows us to classify graphs with respect to their hyperbolicity and to show that many biological networks are hyperbolic. Then we introduce the eccentricity-based bending property which we exploit to identify the core vertices of a graph by proposing two models: the maximum-peak model and the minimum cover set model. In this extended version of the paper, we include some new theorems, as well as proofs of the theorems proposed in the conference paper. Also, we present the algorithms we used for each of the proposed core identification models, and we provide more analysis, explanations, and examples.

scholarly journals LAGRANGIAN BREAKER CHARACTERISTICS FOR NONLINEAR WATER WAVES PROPAGATING ON SLOPING BOTTOMS

2011 ◽  
Vol 1 (32) ◽  
pp. 15
Author(s):  
Yang-Yih Chen ◽  
Meng-Syue Li ◽  
Hung-Chu Hsu ◽  
Ying-Pin Lin
Keyword(s):  
Experimental Data ◽  
Wave Propagation ◽  
Empirical Formula ◽  
Wave Breaking ◽  
Present Theory ◽  
Empirical Formulas ◽  
Third Order ◽  
Wave Shoaling ◽  
Theoretical Results ◽  
Sloping Bottom

In this paper, a new third-order Lagrangian asymptotic solution describing nonlinear water wave propagation on the surface of a uniform sloping bottom is presented. The model is formulated in the Lagrangian variables and we use a two-parameter perturbation method to develop a new mathematical derivation. The particle trajectories, wave pressure and Lagrangian velocity potential are obtained as a function of the nonlinear wave steepness  and the bottom slope  perturbed to third order. The analytical solution in Lagrangian form satisfies state of the normal pressure at the free surface. The condition of the conservation of mass flux is examined in detail for the first time. The two important properties in Lagrangian coordinates, Lagrangian wave frequency and Lagrangian mean level, are included in the third-order solution. The solution can also be used to estimate the mean return current for waves progressing over the sloping bottom. The Lagrangian solution untangle the description of the features of wave shoaling in the direction of wave propagation from deep to shallow water, as well as the process of successive deformation of a wave profile and water particle trajectories leading to wave breaking. The proposed model has proved to be capable of a better description of non-linear wave effects than the corresponding approximation of the same order derived by using the Eulerian description. The proposed solution has also been used to determine the wave shoaling process, and the comparisons between the experimental and theoretical results are presented in Fig.1a~1b. In addition, the basic wave-breaking criterion, namely the kinematical Stokes stability condition, has been investigated. The comparisons between the present theory, empirical formula of Goda (2004) and the experiments made by Iwagali et al.(1974), Deo et al.(2003) and Tsai et al.(2005) for the breaking index(Hb/L0) versus the relative water depth(d0/L0) under two different bottom slopes are depicted in Figs 2a~2b. It is found that the theoretical breaking index is well agreement with the experimental results for three bottom slopes. However,for steep slope of 1/3 shown in Fig 2b, the result of Goda‘s empirical formula gives a larger value in comparison with the experimental data and the present theory. Some of empirical formulas presented the breaking wave height in terms of deepwater wave condition, such as in Sunamura (1983) and in Rattanapitikon and Shibayama(2000). Base on the results depicted in Fig. 3a~3b, it showed that the theoretical results are in good agreement with the experimental data (Iwagali et al. 1974, Deo et al.2003 and Tsai et al. 2005) than the empirical formulas. The empirical formula of Sunamura (1983) always predicts an overestimation value.

scholarly journals Control solutions in mechatronics systems

2005 ◽  
Vol 18 (3) ◽  
pp. 379-394
Author(s):  
Radu-Emil Precup ◽  
Stefan Preitl
Keyword(s):  
Fuzzy Control ◽  
Control Systems ◽  
Third Order ◽  
Fuzzy Controllers ◽  
Real World Application ◽  
Conventional Solution ◽  
Extended Symmetrical Optimum Method ◽  
Theoretical Results ◽  
Iterative Feedback ◽  
Fuzzy Solutions

This paper presents control solutions dedicated to a class of controlled plants widely used in mechatronics systems, characterized by simplified mathematical models of second-order and third-order plus integral type. The conventional control solution is focused on the Extended Symmetrical Optimum method proposed by the authors in 1996. There are proposed six fuzzy control solutions employing PI-fuzzy controllers. These solutions are based on the approximate equivalence in certain conditions between fuzzy control systems and linear ones, on the application of the modal equivalence principle, and on the transfer of results from the continuous-time conventional solution to the fuzzy solutions via a discrete-time expression of the controller where Prof. Milic R. Stojic's book [1] is used. There is performed the sensitivity analysis of the fuzzy control systems with respect to the parametric variations of the controlled plant, which enables the development of the fuzzy controllers. In addition, the paper presents aspects concerning Iterative Feedback Tuning and Iterative Learning Control in the framework of fuzzy control systems. The theoretical results are validated by considering a real-world application.

scholarly journals Validation of Doppler Temperature Coefficients and Component Power Distribution for the Advanced Neutronics Component Program KYLIN V2.0

2021 ◽  
Vol 9 ◽  
Author(s):  
Lei Jichong ◽  
Xie Jinsen ◽  
Chen Zhenping ◽  
Yu Tao ◽  
Yang Chao ◽  
...  
Keyword(s):  
Engineering Design ◽  
Power Distribution ◽  
Nuclear Power ◽  
Nuclear Engineering ◽  
Temperature Coefficients ◽  
The Core ◽  
Fuel Assemblies ◽  
Design Requirements ◽  
Design Software ◽  
Good Agreement

This work is interested in verifying and analyzing the advanced neutronics assembly program KYLIN V2.0. Assembly calculations are an integral part of the two-step calculation for core design, and their accuracy directly affects the results of the core physics calculations. In this paper, we use the Doppler coefficient numerical benchmark problem and CPR1000 AFA-3G fuel assemblies to verify and analyze the advanced neutronics assembly program KYLIN V2.0 developed by the Nuclear Power Institute of China. The analysis results show that the Doppler coefficients calculated by KYLIN V2.0 are in good agreement with the results of other well-known nuclear engineering design software in the world; the power distributions of AFA-3G fuel assemblies are in good agreement with the results of the RMC calculations, it’s error distribution is in accordance with the normal distribution. It shows that KYLIN V2.0 has high calculation accuracy and meets the engineering design requirements.

scholarly journals Robust Low-Tubal-Rank Tensor Completion via Convex Optimization

2019 ◽  
Author(s):  
Qiang Jiang ◽  
Michael Ng
Keyword(s):  
Degrees Of Freedom ◽  
L1 Norm ◽  
Third Order ◽  
Order Tensor ◽  
Rank Tensor ◽  
Real World Applications ◽  
Algebraic Framework ◽  
Tensor Nuclear Norm ◽  
Theoretical Results ◽  
Weighted Combination

This paper considers the problem of recovering multidimensional array, in particular third-order tensor, from a random subset of its arbitrarily corrupted entries. Our study is based on a recently proposed algebraic framework in which the tensor-SVD is introduced to capture the low-tubal-rank structure in tensor. We analyze the performance of a convex program, which minimizes a weighted combination of the tensor nuclear norm, a convex surrogate for the tensor tubal rank, and the tensor l1 norm. We prove that under certain incoherence conditions, this program can recover the tensor exactly with overwhelming probability, provided that its tubal rank is not too large and that the corruptions are reasonably sparse. The number of required observations is order optimal (up to a logarithm factor) when comparing with the degrees of freedom of the low-tubal-rank tensor. Numerical experiments verify our theoretical results and real-world applications demonstrate the effectiveness of our algorithm.

scholarly journals Hybrid Passivity Based and Fuzzy Type-2 Controller for Chaotic and Hyper-Chaotic Systems

2017 ◽  
Vol 11 (2) ◽  
pp. 96-103 ◽  
Author(s):  
Fernando Serrano ◽  
Josep M. Rossell
Keyword(s):  
Lyapunov Exponents ◽  
Chaotic System ◽  
Control Strategy ◽  
Chaotic Systems ◽  
Control Law ◽  
Four Dimensions ◽  
Design Requirements ◽  
The Stability ◽  
Theoretical Results

AbstractIn this paper a hybrid passivity based and fuzzy type-2 controller for chaotic and hyper-chaotic systems is presented. The proposed control strategy is an appropriate choice to be implemented for the stabilization of chaotic and hyper-chaotic systems due to the energy considerations of the passivity based controller and the flexibility and capability of the fuzzy type-2 controller to deal with uncertainties. As it is known, chaotic systems are those kinds of systems in which one of their Lyapunov exponents is real positive, and hyper-chaotic systems are those kinds of systems in which more than one Lyapunov exponents are real positive. In this article one chaotic Lorentz attractor and one four dimensions hyper-chaotic system are considered to be stabilized with the proposed control strategy. It is proved that both systems are stabilized by the passivity based and fuzzy type-2 controller, in which a control law is designed according to the energy considerations selecting an appropriate storage function to meet the passivity conditions. The fuzzy type-2 controller part is designed in order to behave as a state feedback controller, exploiting the flexibility and the capability to deal with uncertainties. This work begins with the stability analysis of the chaotic Lorentz attractor and a four dimensions hyper-chaotic system. The rest of the paper deals with the design of the proposed control strategy for both systems in order to design an appropriate controller that meets the design requirements. Finally, numerical simulations are done to corroborate the obtained theoretical results.

scholarly journals Design and Experimental Investigation on Gas Oxygen/Kerosene Ejector Rocket for RBCC Application

2018 ◽  
Vol 36 (3) ◽  
pp. 558-564
Author(s):  
Xianggeng Wei ◽  
Fei Qin ◽  
Lei Shi ◽  
Baoqing Zhang ◽  
Guoqiang He
Keyword(s):  
Working Conditions ◽  
Rocket Engine ◽  
Combined Cycle ◽  
Engine Test ◽  
The Core ◽  
Technical Requirements ◽  
Core Components ◽  
Design Requirements ◽  
Working Parameters ◽  
Firing Tests

The ejector rocket is one of the core components of the rocket based combined cycle propulsion system, and must be capable of variable working conditions. In order to meet technical requirements for RBCC application, the variable duty operating ejector rocket using the gas Oxygen/Kerosene was designed based on the gas pressurized propellant feed systems. Hot firing tests of four different working conditions had been completed. Experimental results show that the designed ejector rocket engine was stable and reliable, and the working parameters met the design requirements, and the working conditions were adjusted quickly. It lays a foundation for the study of the RBCC engine test and the engine technology of large adjustment ratio.

The Meaning of System

2014 ◽  
Vol 1 (1) ◽  
pp. 21-34 ◽  
Author(s):  
Steen Leleur
Keyword(s):  
Systems Theory ◽  
Complexity Theory ◽  
Explanatory Power ◽  
Theoretical Interest ◽  
Core Concept ◽  
The Core ◽  
Systems Practice ◽  
Actual Meaning ◽  
Current Systems ◽  
Real World Problems

This article reviews the generic meaning of ‘system’ and complements more conventional system notions with a system perception based on recent complexity theory. With system as the core concept of systems theory, its actual meaning is not just of theoretical interest but is highly relevant also for systems practice. It is argued that complexity theory and thinking with reference to Luhmann a.o. ought to be recognised and paid attention to by the systems community. Overall, it is found that a complexity orientation may contribute to extend and enrich the explanatory power of current systems theory when used to complex real-world problems. As regards systems practice it is found that selective use and combination of five presented research approaches (functionalist, interpretive, emancipatory, postmodern and complexity) which function as different but complementing ‘epistemic lenses’ in a process described as constructive circularity, may strengthen the exploration and learning efforts in systems-based intervention.

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