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Collective Dynamics Differentiates Functional Divergence in Protein Evolution

Collective Dynamics Differentiates Functional Divergence in Protein Evolution | Papers | Scoop.it

Proteins are remarkable machines of the living systems that show diverse biochemical functions. Biochemical diversity has grown over time via molecular evolution. In order to understand how diversity arose, it is fundamental to understand how the earliest proteins evolved and served as templates for the present diverse proteome. The one sequence - one structure - one function paradigm is being extended to a new view: an ensemble of different conformations in equilibrium can evolve new function and the analysis of inherent structural dynamics is crucial to give a more complete understanding of protein evolution.

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The ultimate guide to memory - New Scientist

We are all collections of memories. They dictate how we think, act and make decisions, and even define our identity.

Yet memory, with its many virtues and flaws, has puzzled for centuries. How are memories made and stored in the brain? Why do we remember some events but not others? What do other animals remember? And how can we improve the flawed instrument handed to us by evolution?

In these articles we answer these questions and many more, starting with a revolutionary new understanding of memory’s purpose.


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Complex dynamics of elementary cellular automata emerging in chaotic rules

Complex dynamics of elementary cellular automata emerging in chaotic rules | Papers | Scoop.it

We show novel techniques of analysing complex dynamics of cellular automata (CA) with chaotic behaviour. CA are well known computational substrates for studying emergent collective behaviour, complexity, randomness and interaction between order and disorder. A number of attempts have been made to classify CA functions on their spatio-temporal dynamics and to predict behavior of any given function. Examples include mechanical computation, lambda and Z-parameters, mean field theory, differential equations and number conserving features. We propose to classify CA based on their behaviour when they act in a historical mode, i.e. as CA with memory. We demonstrate that cell-state transition rules enriched with memory quickly transform a chaotic system converging to a complex global behaviour from almost any initial condition. Thus in just a few steps we can select chaotic rules without exhaustive computational experiments or recurring to additional parameters. We provide analysis of well-known chaotic functions in one-dimensional CA, and decompose dynamics of the automata using majority memory.

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