Juan Carlos Martínez García - Academia.edu (original) (raw)

Papers by Juan Carlos Martínez García

2003 European Control Conference (ECC), 2003

This paper concerns the experimental evaluation of a PID mixed H2/H∞ control methodology based on... more This paper concerns the experimental evaluation of a PID mixed H2/H∞ control methodology based on the application of genetic algorithms. The considered plant is an experimental DC servosystem affected by disturbances acting on its output, and the performance objective corresponds to the control of the load angular position.

Frontiers in Genetics, 2015

Robust temporal and spatial patterns of cell types emerge in the course of normal development in ... more Robust temporal and spatial patterns of cell types emerge in the course of normal development in multicellular organisms. The onset of degenerative diseases may result from altered cell fate decisions that give rise to pathological phenotypes. Complex networks of genetic and non-genetic components underlie such normal and altered morphogenetic patterns. Here we focus on the networks of regulatory interactions involved in cell-fate decisions. Such networks modeled as dynamical non-linear systems attain particular stable configurations on gene activity that have been interpreted as cell-fate states. The network structure also restricts the most probable transition patterns among such states. The so-called Epigenetic Landscape (EL), originally proposed by C. H. Waddington, was an early attempt to conceptually explain the emergence of developmental choices as the result of intrinsic constraints (regulatory interactions) shaped during evolution. Thanks to the wealth of molecular genetic and genomic studies, we are now able to postulate gene regulatory networks (GRN) grounded on experimental data, and to derive EL models for specific cases. This, in turn, has motivated several mathematical and computational modeling approaches inspired by the EL concept, that may be useful tools to understand and predict cell-fate decisions and emerging patterns. In order to distinguish between the classical metaphorical EL proposal of Waddington, we refer to the Epigenetic Attractors Landscape (EAL), a proposal that is formally framed in the context of GRNs and dynamical systems theory. In this review we discuss recent EAL modeling strategies, their conceptual basis and their application in studying the emergence of both normal and pathological developmental processes. In addition, we discuss how model predictions can shed light into rational strategies for cell fate regulation, and we point to challenges ahead.

IFAC Proceedings Volumes, 2005

We present in this paper some results concerning the preservation of control-oriented properties ... more We present in this paper some results concerning the preservation of control-oriented properties in Linear Time-Invariant systems (LTI systems) when applying substitutions of the Laplace variable s by a particular class of positive real functions, the socalled Positive Real functions of zero relative degree (PR0 functions). In particular, we show that the families of Bounded Real (BR), Strictly Bounded Real (SBR), and Positive Real (PR), rational functions are closed under compositions with the specified class of positive real functions. We also give some results concerning the preservation of stability in proper real rational transfer functions (in fact this is our main result), as well as the preservation of the H ∞norm bound for this class of systems. Our study is restricted to Single-Input Single Output (SISO) systems.

Revista Mexicana de Biodiversidad, 2017

La biología evolutiva se enfoca al estudio de los patrones de variación fenotípica heredables den... more La biología evolutiva se enfoca al estudio de los patrones de variación fenotípica heredables dentro de las poblaciones y su dinámica en tiempos transgeneracionales. Históricamente, los modelos evolutivos a nivel de las poblaciones se han desarrollado bajo supuestos simples. Dos de ellos particularmente importantes son: 1) el cambio genético es un indicador directo de la variación fenotípica y 2) existe aditividad de los impactos genéticos sobre el fenotipo. Un modelo más certero de evolución biológica debería de considerar explícitamente el mapeo entre genotipo y fenotipo y viceversa, ya que los mecanismos que median el desarrollo de los organismos y su interacción con el ambiente son los que generan la variación fenotípica. Una perspectiva dinámica no lineal es imprescindible para entender cómo se genera la variación fenotípica dado un fondo genético particular. Dicho de otra manera, es necesario entender los mecanismos sistémicos del mapeo entre genotipo y fenotipo en un contexto ecológico y evolutivo. El campo que comprende este enfoque es el de la Ecología Evolutiva del Desarrollo (Eco-Evo-Devo), el cual tiene además un enfoque sistémico. En México este campo ha crecido de manera incipiente a través del análisis de los mecanismos de desarrollo con enfoques de biología de sistemas, principalmente. En este artículo resumimos avances de este campo de estudio en México y cuáles son los principales grupos de investigación en el país, tanto en plantas como en animales. También evaluamos los impactos biomédicos de tomar esta perspectiva.

The use of general descriptive names, registered names, trademarks, service marks, etc. in this p... more The use of general descriptive names, registered names, trademarks, service marks, etc. in this publication does not imply, even in the absence of a specific statement, that such names are exempt from the relevant protective laws and regulations and therefore free for general use. The publisher, the authors and the editors are safe to assume that the advice and information in this book are believed to be true and accurate at the date of publication. Neither the publisher nor the authors or the editors give a warranty, express or implied, with respect to the material contained herein or for any errors or omissions that may have been made. The publisher remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Methods in Molecular Biology

Advances in Experimental Medicine and Biology

Corps of Engineers provides guidance and has overall Program responsibility. The mode of operatio... more Corps of Engineers provides guidance and has overall Program responsibility. The mode of operation and respective roles of the agencies are outlined in a 1988 Memorandum of Agreement. The UMRS encompasses the commercially navigable reaches of the Upper Mississippi River, as well as the Illinois River and navigable portions of the Kaskaskia, Black, St. Croix, and Minnesota Rivers. Congress has declared the UMRS to be both a nationally significant ecosystem and a nationally significant commercial navigation system. The mission of the LTRMP is to provide decision makers with information for maintaining the UMRS as a sustainable large river ecosystem given its multiple-use character. The long-term goals of the Program are to understand the system, determine resource trends and effects, develop management alternatives, manage information, and develop useful products. This report was prepared by the Geographic Information Systems and Remote Sensing Applications Branch, Information Systems Support Division of the EMTC. The strategies for conducting spatial analysis to map migratory bird habitat in the Upper Mississippi River Basin are included in the LTRMP Operating Plan (USFWS 1993) as Strategy 2.2.9, Monitor and EvaluateWildlife, and Strategy 3.2.1, Prepare Management Alternatives. This report was developed with partial funding provided by the Long Term Resource Monitoring Program.

Asian Journal of Control

A novel robust observer, intended to solve the output-feedback chaos synchronization problem for ... more A novel robust observer, intended to solve the output-feedback chaos synchronization problem for the Master/Slave Configuration, is proposed here. Assuming that the given Master system belongs to a specific class of feedback-linearized systems, our solution is based on the well-known Immersion and Invariance (I&I) method. The proposed observer is devoted to the asymptotic estimation of the Master system's underlying dynamics, and its effectiveness is illustrated via computer-based simulations that involve both the so-called Duffing's oscillator and the Genesio & Tesi system.

Computación y Sistemas

Our concern is the tuning of mathematical models describing rationally designed genetic biocircui... more Our concern is the tuning of mathematical models describing rationally designed genetic biocircuits. Based on a deterministic lumped continuous-time approach, we propose a tuning methodology combining both exact algebraic parameter reconstruction and nonlinear parameter estimation of a given model supporting the design of a specific genetic biocircuit, i.e., we bridge the gap between model-based design and implementation as the solution of a systems inverse problem. As a proof of concept, our proposal is constrained to cyclic feedback systems characterizing synthesized transcriptional networks conditioned to display sustained oscillatory behavior. Our proposed methodology is illustrated via computer-based simulations involving the tuning of a state-based model describing a well-know cyclic feedback biocircuit: the celebrated repressilator. Tuning in our case is conceived as a procedure to adjust the parameter values of the mathematical model taking into account for this the actual behavior observed from the corresponding synthesized biocircuit.

International Journal of Adaptive Control and Signal Processing, 2016

Journal of theoretical biology, Jan 11, 2016

Downstream connection effects on transcription are caused by retroactivity. When biomolecular dyn... more Downstream connection effects on transcription are caused by retroactivity. When biomolecular dynamical systems interconnect retroactivity is a property that becomes important. The biological functional meaning of these effects is increasingly becoming an area of interest. Downstream targets, which are operator binding sites in transcriptional networks, may induce behaviors such as ultrasensitive responses or even represent an undesired issue in regulation. To the best of our knowledge, the role of the binding mechanisms of transcription factors in relation to minimizing -or enhancing- retroactivity effects has not been previously addressed. Our aim is to evaluate retroactivity effects considering how the binding mechanism impacts the number of free functional transcription factor (FFTF) molecules using a simple model via deterministic and stochastic simulations. We study four transcription factor binding mechanisms (BM): simple monomer binding (SMB), dimer binding (DB), cooperative...

Gene regulatory network (GRN) modeling is a well-established theoretical framework for the study ... more Gene regulatory network (GRN) modeling is a well-established theoretical framework for the study of cell-fate specification during developmental processes. Recently, dynamical models of GRNs have been taken as a basis for formalizing the metaphorical model of Waddingtons epigenetic landscape, providing a natural extension for the general protocol of GRN modeling. In this contribution we present in a coherent framework a novel implementation of two previously proposed general frameworks for modeling the Epigenetic Attractors Landscape associated with boolean GRNs: the inter-attractor and interstate transition approaches. We implement novel algorithms for estimating inter-attractor transition probabilities without necessarily depending on intensive single-event simulations. We analyze the performance and sensibility to parameter choices of the algorithms for estimating inter-attractor transition probabilities using three real GRN models. Additionally, we present a side-by-side analysis of downstream analysis tools such as the attractors' temporal and global ordering in the EAL. Overall, we show how the methods complement each other using a real case study: a cellular-level GRN model for epithelial carcinogenesis. We expect the toolkit and comparative analyses put forward here to be a valuable additional resource for the systems biology community interested in modeling cellular differentiation and reprogramming both in normal and pathological developmental processes.

Unsolved Problems in Mathematical Systems and Control Theory, 2009

21st Mediterranean Conference on Control and Automation, 2013

ABSTRACT Recently, it has been shown that the implicit rectangular descriptions can be successful... more ABSTRACT Recently, it has been shown that the implicit rectangular descriptions can be successfully used for modelling and controlling broad classes of linear systems, including systems with internal switches. This technique consists in finding first the degree of freedom, characterizing the internal variable structure, and then making it unobservable by means of a proportional and derivative descriptor variable. Up to now, there is no descriptor variable observer scheme for implicit rectangular systems. In this paper we propose two different ways for observing the descriptor variable: a descriptor variable observer based on fault detection and a descriptor variable observer based on adaptive structure detection. The first proposition is realized by continuous linear filters, which is performed for minimum phase systems. The second proposition is based on an adaptive structure detection which guarantees detection in a finite time.

IET Control Theory & Applications, 2013

ABSTRACT

IEEE Transactions on Automatic Control, 1995

The closed-loop system (3.1) with linear uncertainty o (y) = F y is asymptotically stable for 0 5... more The closed-loop system (3.1) with linear uncertainty o (y) = F y is asymptotically stable for 0 5 F 5 4.6. The Nyquist plot for the linear system is shown in Fig. I. Hence, it follows from the positivity theorem that the linear system is asymptotically stable for all timeinvariant monotone nonlinearities in the sector [0, I .24). Fig. 2 shows the corresponding Popov plot which, in this case, gives a Popov sector of [0, 1.24). Hence, since the Nyquist plot of G(s) enters the second quadrant the Popov criterion does not provide any improvement over the positive real test. Finally, using Theorem 3.1 we construct a modified Popov plot shown in Fig. 3. Using the modified Popov exclusionary half plane graphical test given by (3.19), the absolute stability sector is now found to be [0,4.6), which is a significant improvement over the positivity and Popov sectors for time-invariant monotone feedback nonlinearities. V. CONCLUSION In this paper we extended the SISO absolute stability criterion for locally slope-restricted monotonic nonlinearities developed in [ 181 to multivariable systems containing an arbitrary number of monotonic slope bounded nonlinearities. Specifically, explicit Lyapunov functions along with extended Yakubovich-Kalman-Popov conditions are given. These results can be used to synthesize robust feedback controllers in the spirit of 161, 181, [91. 2632-2633. [7]-, "Off-axis absolute stability criteria and //-bounds involving non-positive-real plant-dependent multipliers for robust stability and performance with locally slope-restricted monotonic nonlinearities," in

Automatica, 2001

When the simultaneous disturbance rejection and regular block decoupling problem by static state ... more When the simultaneous disturbance rejection and regular block decoupling problem by static state feedback is solvable, and under some unrestrictive minimality assumption, all the poles of the closed-loop system can be placed, except the so-called fixed poles (which are present for any solution). We present here a geometric characterization for this set of fixed poles as well as a constructive procedure (based on geometric tools) for designing a feedback solution of the problem which assigns the remaining poles to arbitrary prespecified locations.