抗原变异可使得多种致病微生物易于逃避宿主免疫应答。表达在感染红细胞表面的恶性疟原虫红细胞表面蛋白1（PfPMP1）与感染红细胞、内皮细胞、树突状细胞以及胎盘的单个或多个受体作用，在黏附及免疫逃避中起关键的作用。每个单倍体基因组var基因家族编码约60种成员，通过启动转录不同的var基因变异体为抗原变异提供了分子基础。

疟原虫var基因转换速率变化导致抗原变异[英]／Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A

Statistical physics has proven to be a fruitful framework to describe phenomena outside the realm of traditional physics. Recent years have witnessed an attempt by physicists to study collective phenomena emerging from the interactions of individuals as elementary units in social structures. A wide list of topics are reviewed ranging from opinion and cultural and language dynamics to crowd behavior, hierarchy formation, human dynamics, and social spreading. The connections between these problems and other, more traditional, topics of statistical physics are highlighted. Comparison of model results with empirical data from social systems are also emphasized.

Statistical physics of social dynamics

1980 Preface * 1999 Preface * 1999 Acknowledgements * Introduction * 1 Circular Logic * 2 Phase Singularities (Screwy Results of Circular Logic) * 3 The Rules of the Ring * 4 Ring Populations * 5 Getting Off the Ring * 6 Attracting Cycles and Isochrons * 7 Measuring the Trajectories of a Circadian Clock * 8 Populations of Attractor Cycle Oscillators * 9 Excitable Kinetics and Excitable Media * 10 The Varieties of Phaseless Experience: In Which the Geometrical Orderliness of Rhythmic Organization Breaks Down in Diverse Ways * 11 The Firefly Machine 12 Energy Metabolism in Cells * 13 The Malonic Acid Reagent ('Sodium Geometrate') * 14 Electrical Rhythmicity and Excitability in Cell Membranes * 15 The Aggregation of Slime Mold Amoebae * 16 Numerical Organizing Centers * 17 Electrical Singular Filaments in the Heart Wall * 18 Pattern Formation in the Fungi * 19 Circadian Rhythms in General * 20 The Circadian Clocks of Insect Eclosion * 21 The Flower of Kalanchoe * 22 The Cell Mitotic Cycle * 23 The Female Cycle * References * Index of Names * Index of Subjects

https://www.cambridge.org/core/services/aop-cambridge-core/content/view/596B270197FE27DE5FABB598B6210622/S0025557200150892a.pdf/div-class-title-span-class-italic-the-geometry-of-biological-time-span-by-a-t-winfree-pp-544-dm68-corrected-second-printing-1990-isbn-3-540-52528-9-springer-div.pdf

The geometry of biological time , by A. T. Winfree. Pp 544. DM68. Corrected Second Printing 1990. ISBN 3-540-52528-9 (Springer)

https://deim.urv.cat/~alexandre.arenas/publicacions/pdf/review.pdf

Synchronization in complex networks

This paper presents a polynomial dimensional decomposition (PDD) method for global sensitivity analysis of stochastic systems subject to independent random input following arbitrary probability distributions. The method involves Fourier-polynomial expansions of lower-variate component functions of a stochastic response by measure-consistent orthonormal polynomial bases, analytical formulae for calculating the global sensitivity indices in terms of the expansion coefficients, and dimension-reduction integration for estimating the expansion coefficients. Due to identical dimensional structures of PDD and analysis-of-variance decomposition, the proposed method facilitates simple and direct calculation of the global sensitivity indices. Numerical results of the global sensitivity indices computed for smooth systems reveal significantly higher convergence rates of the PDD approximation than those from existing methods, including polynomial chaos expansion, random balance design, state-dependent parameter, improved Sobol’s method, and sampling-based methods. However, for non-smooth functions, the convergence properties of the PDD solution deteriorate to a great extent, warranting further improvements. The computational complexity of the PDD method is polynomial, as opposed to exponential, thereby alleviating the curse of dimensionality to some extent. Mathematical modeling of complex systems often requires sensitivity analysis to determine how an output variable of interest is influenced by individual or subsets of input variables. A traditional local sensitivity analysis entails gradients or derivatives, often invoked in design optimization, describing changes in the model response due to the local variation of input. Depending on the model output, obtaining gradients or derivatives, if they exist, can be simple or difficult. In contrast, a global sensitivity analysis (GSA), increasingly becoming mainstream, characterizes how the global variation of input, due to its uncertainty, impacts the overall uncertain behavior of the model. In other words, GSA constitutes the study of how the output uncertainty from a mathematical model is divvied up, qualitatively or quantitatively, to distinct sources of input variation in the model [1].

Reliability Engineering and System Safety

We study cascading failures in networks using a dynamical flow model based on simple conservation and distribution laws. It is found that considering the flow dynamics may imply reduced network robustness compared to previous static overload failure models. This is due to the transient oscillations or overshooting in the loads, when the flow dynamics adjusts to the new (remaining) network structure. The robustness of networks showing cascading failures is generally given by a complex interplay between the network topology and flow dynamics.

/pdf/transient-dynamics-increasing-network-vulnerability-to-1mnpfeqlij.pdf

Transient Dynamics Increasing Network Vulnerability to Cascading Failures

We present a model for the dynamic spreading of failures in networked systems. The model combines network nodes as active, bistable elements and delayed interactions along directed links. By means of simulations, we explore the timedependent spreading and cascade failures in different network topologies. The results of these simulations point towards a phase transition in the spreading dynamics that depends on node parameters and network topology. In particular, we observe a critical threshold for node recovery. Below this threshold, any disturbance propagates only through a small fraction of the network. The size of this perturbed fraction is determined numerically. Furthermore, we discuss the robustness of networks challenged by coinciding internal failures. Our model may be used to improve disaster preparedness and anticipative disaster response management. r 2006 Elsevier B.V. All rights reserved.

Modelling the Dynamics of Disaster Spreading in Networks

We study the effectiveness of recovery strategies for a dynamic model of failure spreading in networks. These strategies control the distribution of resources based on information about the current network state and network topology. In order to assess their success, we have performed a series of simulation experiments. The considered parameters of these experiments are the network topology, the response time delay, and the overall disposition of resources. Our investigations are focused on the comparison of strategies for different scenarios and the determination of the most appropriate strategy. The importance of prompt response and the minimum sufficient quantity of resources are discussed as well.

Efficient response to cascading disaster spreading.

We present a self-organising, decentralised control method for material flows in networks. The concept applies to networks where time sharing mechanisms between conflicting flows in nodes are required and where a coordination of these local switches on a system-wide level can improve the performance. We show that, under certain assumptions, the control of nodes can be mapped to a network of phase-oscillators. By synchronising these oscillators, the desired global coordination is achieved. We illustrate the method in the example of traffic signal control for road networks. The proposed concept is flexible, adaptive, robust and decentralised. It can be transferred to other queuing networks such as production systems. Our control approach makes use of simple synchronisation principles found in various biological systems in order to obtain collective behaviour from local interactions.

Decentralised control of material or traffic flows in networks using phase-synchronisation

In order to assess cascading effects in directed networks, we present a model for the dynamics of failure spreading. The model combines network nodes as active, bistable elements and delayed interactions along directed links. Through simulations, we study the dynamics behaviour of generic sample networks. Besides evaluating the failure cascades, for which we observe a critical threshold for the undamped spreading of failures in a network, we simulated the effect of different strategies for the management of spreading disasters. Our recovery strategies are based on the assumption that the interaction structure of the challenged network remains unchanged, while additional resources for mitigation actions, improving the recovery capacities of system components, can be distributed over the network. The simulations clearly demonstrate that the topology of a network is a crucial factor both for the behaviour under external disturbances and for the optimality of different strategies to cope with an evolving disaster. Our model may be used to improve disaster preparedness and anticipative disaster response management.

Karsten Peters

Papers

Transient Dynamics Increasing Network Vulnerability to Cascading Failures

Modelling the Dynamics of Disaster Spreading in Networks

Efficient response to cascading disaster spreading.

Decentralised control of material or traffic flows in networks using phase-synchronisation

Modelling of cascading effects and efficient response to disaster spreading in complex networks