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It is shown that hierarchical bifurcation of chaotic intermittency among memories can be induced by reducing neural connectivity when sequences of similar patterns are stored in a recurrent neural network using the pseudo-inverse method. This chaos is potentially useful for memory search and synthesis.

Chaotic dynamics introduced into a neural network model is applied to solving two-dimensional mazes, which are ill-posed problems. A moving object moves from the position at t to t + 1 by simply defined motion function calculated from firing patterns of the neural network model at each time step t. We have embedded several prototype attractors that correspond to the simple motion of the object orienting toward several directions in two-dimensional space in our neural network model. Introducing chaotic dynamics into the network gives outputs sampled from intermediate state points between embedded attractors in a state space, and these dynamics enable the object to move in various directions. System parameter switching between a chaotic and an attractor regime in the state space of the neural network enables the object to move to a set target in a two-dimensional maze. Results of computer simulations show that the success rate for this method over 300 trials is higher than that of random walk. To investigate why the proposed method gives better performance, we calculate and discuss statistical data with respect to dynamical structure.

We scrutinize the length dependency of the binding affinity of bacterial repressor TrpR protein to trpO (specific site) on DNA. A footprinting experiment shows that the longer the DNA length, the larger the affinity of TrpR to the specific site on DNA. This effect termed “antenna effect” might be interpreted as follows: longer DNA provides higher probability for TrpR to access to the specific site aided by one-dimensional diffusion along the nonspecific sites of DNA. We show that, however, the antenna effect cannot be explained while detailed balance holds among three kinetic states, that is, free protein/DNA, nonspecific complexes, and specific complex. We propose a working hypothesis that slow degree(s) of freedom in the system switch(es) different potentials of mean force causing transitions among the three states. This results in a deviation from detailed balance on the switching timescale. We then derive a simple reaction diffusion/binding model that describes the antenna effect on TrpR binding to its target operator. Possible scenarios for such slow degree(s) of freedom in TrpR–DNA complex are addressed.

Complex dynamics including chaos in systems with large but finite degrees of freedom are considered from the viewpoint that they would play important roles in complex functioning and controlling of biological systems including the brain, also in complex structure formations in nature. As an example of them, the computer experiments of complex dynamics occurring in a recurrent neural network model are shown. Instabilities, itinerancies, or localization in state space are investigated by means of numerical analysis, for instance by calculating correlation functions between neurons, basin visiting measures of chaotic dynamics, etc. As an example of functional experiments with use of such complex dynamics, we show the results of executing a memory search task which is set in a typical ill-posed context. We call such useful dynamics "constrained chaos," which might be called "chaotic itinerancy" as well. These results indicate that constrained chaos could be potentially useful in complex functioning and controlling for systems with large but finite degrees of freedom typically observed in biological systems and may be such that working in a delicate balance between converging dynamics and diverging dynamics in high dimensional state space depending on given situation, environment and context to be controlled or to be processed.

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