Published in Bio Systems
The aim of this paper is to evaluate the role of symmetry and symmetry-breaking processes on the complex information processing developed by hierarchical evolutionary natural systems, such as biological, neural, social or cultural systems. The study is conducted in the frame of the Memory Evolutive Systems, which give a mathematical model of these ...
Published in Bio Systems
A statistical analysis with 12,288 autocorrelation functions applied in protein (coding) genes of prokaryotes and eukaryotes identifies three subsets of trinucleotides in their three frames: T0 = X0 [symbol: see text] {AAA, TTT} with X0 = {AAC, AAT, ACC, ATC, ATT, CAG, CTC, CTG, GAA, GAC, GAG, GAT, GCC, GGC, GGT, GTA, GTC, GTT, TAC, TTC} in frame 0...
Published in Bio Systems
Theories of neural coding rely on a knowledge of correlations between firing events. These correlations are also useful to validate biophysical models for the neural activity. We present a methodology for validating models based on the assessment of linear and non-linear correlations between variables derived from the spike train. The firing patter...
Published in Bio Systems
'Partial Charge-Neutralization Method' is developed to study influence of the relative amount of positive and negative charges in proteins on their structural stability. A given number of either positively or negatively charged groups are neutralized in all of their possible combinations to generate a whole set of distinct species. The Coulomb ener...
Published in Bio Systems
We analyze the analog-to-frequency transduction by sensory neurons in vivo. Spatially extended neural models are made to fire by applying the stimulus to the membrane potential at the boundary of the trigger zone. The membrane property that provides a broad dynamical range of frequency is a prolonged hyperpolarizing afterpotential. In support of th...
Published in Bio Systems
A simple model for interactive structure formation is studied to simulate the trail formation by ants based on local chemical communication. In our model, active random walkers, which do not have the ability of visual navigation or storage of information, first have to discover different distributions of food sources and then have to link these sou...
Published in Bio Systems
A number of metrics for comparing the branching structure of trees have been used as important tools in the quantitative analysis of evolutionary trees. Less attention has been paid to developing a general comparison methodology for different leaf-labeled N-trees such as classification trees and various types of dendrograms. In this paper a method ...
Published in Bio Systems
The Darwinian paradigm of biological evolution is based on the independence of genetic variations from selection which occurs afterwards. However, according to the phenomenon of directed mutations, some genetic variations occur mostly when the conditions favorable for their growth are created. I propose that the explanation of this phenomenon shoul...
Published in Bio Systems
This paper describes modelling tools for formal systems design in the fields of information and physical systems. The concept and method of incursion and hyperincursion are first applied to the fractal machine, an hyperincursive cellular automata with sequential computations with exclusive or where time plays a central role. Simulations show the ge...
Published in Bio Systems
Geometric derivations and mathematical formulas have shown how the symmetrical patterns of plants, animals and crystals, follow similar mathematical solutions. These transformations have had the great value of indicating relationships between different types of patterns. However, they could neither shed light on the material processes that led to t...
