ROMERO CAMPERO , Francisco José

LOS PROGRAMAS INFORMÁTICOS QUE MODELIZAN CÉLULAS FACILITARÁN EL TRABAJO DE LOS BIÓLOGOS Se basa en hacer modelos de células, por lo que llevo tres años en los que estoy realizando modelos de sistemas biológicos en bacterias. Una parte de programación la realizan ingenieros de software, pero yo monto el algoritmo o el modelo que simula el...

"Los programas informáticos que modelizan células facilitarán el trabajo de los biólogos. Se basa en hacer modelos de células, por lo que llevo tres años en los que estoy realizando modelos de sistemas biológicos en bacterias. Una parte de programación la realizan ingenieros de software, pero yo monto el algoritmo o el modelo que simula el comp...

Living cells assembled into colonies or tissues communicate using complex systems. These systems consist in the interaction between many molecular species distributed over many compartments. Among the different cellular processes used by cells to monitor their environment and respond accordingly, gene regulatory networks, rather than individual...

Membrane computing is a branch of natural computing aiming to abstract computing models from the structure and functioning of the living cell, and from the way cells cooperate in tissues, organs, or other populations of cells. This research area developed very fast, both at the theoretical level and in what concerns the applications. After...

The response to daylength is a crucial process that evolved very early in plant evolution, entitling the early green eukaryote to predict seasonal variability and attune its physiological responses to the environment. The photoperiod responses evolved into the complex signaling pathways that govern the angiosperm floral transition today. The...

This paper presents two approaches based on metabolic and stochastic P systems, together with their associated analysis methods, for modelling biological sys- tems and illustrates their use through two case studies.

In this paper we present P systems as a reliable computa- tional modelling tool for Systems Biology that takes into account the discrete character of the quantity of components of biological systems, the inherently randomness in biological phenomena and the key role played by membranes in the function of living cells. We will introduce two...

No description

Quorum sensing is a cell density dependent gene regulation system that allows an entire population of bacterial cells to communicate in order to regulate the expression of certain or specific genes in a coordinated way depending on the size of the population. In this paper we present a model of the Quorum Sensing System in Vibrio fischeri...

Many approaches to anticancer treatment have had a limited success. A fundamental hurdle to cancer therapy is the robustness of the signalling networks involved in tumourgenesis. The complexity of net- works of biological signalling pathways is such that the development of simplifying models is essential in trying to understand the...

Ministerio de Ciencia y Tecnología TIC2002-04220-C03-01

In this paper we present an e®ective solution to the BINPACKING problem using a family of recognizer P systems with active membranes, input membrane and external output. The analysis of the solution presented here will be done form the point of view of complexity classes.

The complexity of networks of biological signalling pathways is such that the development of simplifying models is essential in trying to understand the wide-ranging cellular responses they can generate. In this paper a continuous variant of membrane systems is introduced and used to model the epidermal growth factor receptor signalling network...

In this paper P systems are used as a formal framework for the specification and simulation of biological systems. In particular, we will deal with gene regulation systems consisting of protein–protein and protein–DNA interactions that take place in different compartments of the hierarchical structure of the living cell or in different...

Many NP-complete problems can be viewed as special cases of the Common Algorithmic Problem (CAP). In a precise sense, which will be defined in the paper, one may say that CAP has a property of local universality. In this paper we present an effective solution to the decision version of the CAP using a family of recognizer P systems with active...

Quorum sensing is a cell density dependent gene regulation system that allows an entire population of bacterial cells to communicate in order to regulate the expression of certain or specific genes in a coordinated way depending on the size of the population. In this paper we present a model of the Quorum Sensing System in Vibrio fischeri...

In this paper we propose a new way to represent recognizer P systems with active membranes based on Production Systems techniques. This representation allows us to express the set of rules and the configurations in each step of the evolution as facts in a knowledge base. We provide a CLIPS program to simulate the evolutions of this variant of P systems.

In the last time, several efforts have been made in order to remove polarizations of membranes from P systems with active membranes; the present paper is a contribution in this respect. In order to compensate the loss of power represented by avoiding polarizations, we use bi-stable catalysts. Polarizationless systems with active membranes which...

Measuring day length confers a strong fitness improvement to photosynthetic organisms as it allows them to anticipate light phases and take the best decisions preceding diurnal transitions. In close association with signals from the circadian clock and the photoreceptors, photoperiodic sensing constitutes also a precise way to determine the...

No description

This paper investigates a hybrid approach to modeling molecular interactions in biology. P systems, π-calculus, and Petri nets models, and two tools, Daikon, used in software reverse-engineering, and PRISM, a probabilistic model checker, are investigated for their expressiveness and complementary roles in describing and analyzing...

The Infobiotics Workbench is an integrated software suite incorporating model specification, simulation, parameter optimization and model checking for Systems and Synthetic Biology. A modular model specification allows for straightforward creation of large-scale models containing many compartments and reactions. Models are simulated either...