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While Artificial Neural Networks (ANNs) have yielded impressive results in the realm of simulated intelligent behavior, it is important to remember that they are but sparse approximations of Biological Neural Networks (BNNs). We go beyond…
Integrative biological simulations have a varied and controversial history in the biological sciences. From computational models of organelles, cells, and simple organisms, to physiological models of tissues, organ systems, and ecosystems,…
We address the problem of parameter estimation in models of systems biology from noisy observations. The models we consider are characterized by simultaneous deterministic nonlinear differential equations whose parameters are either taken…
This article presents a naturalist approach to cognition understood as a network of info-computational, autopoietic processes in living systems. It provides a conceptual framework for the unified view of cognition as evolved from the…
Cosmology contributes a good deal to the investigation of variation of fundamental physical constants. High resolution data is available and allows for detailed analysis over cosmological distances and a multitude of methods were developed.…
We present a broad and simple class of scalar-tensor scenarios that successfully realize dynamical damping of the effective cosmological constant, therefore providing a viable dynamical solution to the fine-tuning or "old" cosmological…
We discuss some of the cosmological constraints on the evolution and persistence of life in the Universe and in hypothetical universes other than our own. We highlight the role played by the age and size of the universe, and discuss the…
Although it is well known that any consideration of the variations of fundamental constants should be restricted to their dimensionless combinations, the literature on variations of the gravitational constant $G$ is entirely dimensionful.…
Searching for variations of nature's fundamental constants is a crucial step in our quest to go beyond our current standard model of fundamental physics. If they exist, such variations will be very likely driven by the existence of a new…
In this contribution a broad overview of the methodologies of cosmological N-body simulations and a short introduction explaining the general idea behind such simulations is presented. After explaining how to set up the initial conditions…
This document is written with the intention to describe in detail a method and means by which a computer program can reason about the world and in so doing, increase its analogue to a living system. As the literature is rife and it is…
We derive the basic equations of the cosmological first-order post-Newtonian approximation from the recently formulated fully nonlinear and exact cosmological perturbation theory in Einstein's gravity. Apparently the latter, being exact,…
It is argued that our universe happens to be in a state of statistical equilibrium at the hidden-variable level, such that nonlocality is masked by quantum noise. To account for this 'quantum equilibrium', we outline a subquantum…
The fields of Origin of Life and Artificial Life both question what life is and how it emerges from a distinct set of "pre-life" dynamics. One common feature of most substrates where life emerges is a marked shift in dynamics when…
Being mathematics a natural language to Mankind and to physics, it must be constantly adapted to our necessities and our natural perception. Then, mathematical concepts are not absolute to reality. Although mathematical theories are…
This work is an attempt for a state-of-the-art survey of natural and life sciences with the goal to define the scope and address the central questions of an original research program. It is focused on the phenomena of emergence, adaptive…
Alignments, i.e., position-wise comparisons of two or more strings or ordered lists are of utmost practical importance in computational biology and a host of other fields, including historical linguistics and emerging areas of research in…
For Lee Smolin, our universe is only one in a much larger cosmos (the Multiverse) - a member of a growing community of universes, each one being born in a bounce following the formation of a black hole. In the course of this, the values of…
The initial conditions of our universe appear to us in the form of a classical probability distribution that we probe with cosmological observations. In the current leading paradigm, this probability distribution arises from a quantum…
The observable universe is necessarily hospitable for life. There are indications, however, that the laws of physics and cosmological parameters need not take the form and values observed, and if they were slightly different life could not…