Related papers: Modelling the longevity of complex living systems
Evolution has fascinated quantitative and physical scientists for decades: how can the random process of mutation, recombination, and duplication of genetic information generate the diversity of life? What determines the rate of evolution?…
Talk given at NATO ARW in Kiev (September 2000) "Non-commutative Structures in Mathematics and Physics".
The basic mechanics of evolution have been understood since Darwin. But debate continues over whether macroevolutionary phenomena are driven primary by the fitness structure of genotype space or by ecological interaction. In this paper we…
We congratulate the authors for the interesting paper. The reading has been really pleasant and instructive. We discuss briefly only some of the interesting results given in Devroye and James "On simulation and properties of the stable…
We propose a method to ease the challenges of exploring multi-dimensional parameter spaces in beyond-the-Standard Model theories. We evaluate the model likelihood for any choice of parameters by sampling the theory parameters intelligently…
Co-evolutionary processes are according to the evolutionary urban theory at the center of urban systems dynamics. Their empirical observation or within models of simulation remains however relatively rare. This chapter is focused on the…
We give here the Table of Contents of the proceedings from the workshop "Red Giants as Probes of the Structure and Evolution of the Milky Way", held in Roma, 15-17 November 2010. Exciting results are blooming, thanks to a convergence…
The dynamics of complex systems generally include high-dimensional, non-stationary and non-linear behavior, all of which pose fundamental challenges to quantitative understanding. To address these difficulties we detail a new approach based…
In this paper we examine a number of methods for probing and understanding the large-scale structure of networks that evolve over time. We focus in particular on citation networks, networks of references between documents such as papers,…
The catalog of stellar evolution tracks discussed in our previous work is meant to help characterize exoplanet host-stars of interest for follow-up observations with future missions like JWST. However, the utility of the catalog has been…
The model of a multi-level system interacting with several reservoirs is considered. The exact reduced density matrix evolution could be obtained for this model without Markov approximation. Namely, this evolution is fully defined by the…
This is a colloquium style pedagogical introduction to the paradigm of large extra dimensions. To be published in the Proceedings of the Workshop "Crossing the boundaries: Gauge dynamics at strong coupling," (May 14 - 17, 2009,…
Protein evolution underpins life, and understanding its behavior as a system is of great importance. However, our current models of protein evolution are arguably too simplistic to allow quantitative interpretation and prediction of…
Existential rules have been proposed for representing ontological knowledge, specifically in the context of Ontology-Based Query Answering. Entailment with existential rules is undecidable. We focus in this paper on conditions that ensure…
In this thesis I develop a variety of techniques to train, evaluate, and sample from intractable and high dimensional probabilistic models. Abstract exceeds arXiv space limitations -- see PDF.
"Epigenetic Tracking" is a model of systems of biological cells, able to generate arbitrary 2 or 3-dimensional cellular shapes of any kind and complexity (in terms of number of cells, number of colours, etc.) starting from a single cell. If…
The evolution of complexity has been a central theme for Biology [2] and Artificial Life research [1]. It is generally agreed that complexity has increased in our universe, giving way to life, multi-cellularity, societies, and systems of…
Confluent populations of elongated cells give rise to ordered patterns seen in nematic phase liquid crystals. We correlate cell elongation and intercellular distance with intercellular alignment using an amorphous spin glass model. We…
The evolution of structure in biology is driven by accretion and change. Accretion brings together disparate parts to form bigger wholes. Change provides opportunities for growth and innovation. Here we review patterns and processes that…
We will review some of the theoretical progresses that have been in the study of complex systems in physics and of their applications to biology.