Jorge Júlvez

 

Publications

 


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Journal papers



Mycobacterial metabolic model development for drug target identification (preprint)
B. Bannerman, A. Oarga, J. Júlvez
GigaByte, 2023.

CONTRABASS: Exploiting flux constraints in genome-scale models for the detection of vulnerabilities PDF
A. Oarga, B. Bannerman, S. G Oliver, J. Júlvez
Bioinformatics, 2023.

Combination of Genome-Scale Models and Bioreactor Dynamics to Optimize the Production of Commodity Chemicals PDF
J. Lázaro, G. Jansen, Y. Yang, M. A. Torres-Acosta, G. Lye, S. G Oliver, J. Júlvez
Frontiers in Molecular Biosciences, section Biological Modeling and Simulation, Vol. 9, 2022.

Integrated human/SARS-CoV-2 metabolic models present novel treatment strategies against COVID-19 PDF
B. P. Bannerman, J. Júlvez, A. Oarga, T. L. Blundell, P. Moreno, R. A. Floto
Life Science Alliance, Vol. 4(10), pp. e202000954, 2021.

A Unifying Modelling Formalism for the Integration of Stoichiometric and Kinetic Models PDF (preprint)
J. Júlvez, S. G. Oliver
Journal of the Royal Society Interface, Vol. 17(169), pp. 202000341, 2020.

Steady State Analysis of Flexible Nets PDF (preprint)
J. Júlvez, S. G. Oliver
IEEE Transactions on Automatic Control, Vol. 65(6), pp. 2510-2525, 2020.

Modeling, analyzing and controlling hybrid systems by Guarded Flexible Nets PDF
J. Júlvez, S. G. Oliver
Nonlinear Analysis: Hybrid Systems, Vol. 32, pp. 131-146, 2019.

Flexible Nets: A modeling formalism for dynamic systems with uncertain parameters PDF
J. Júlvez, S. G. Oliver
Discrete Event Dynamic Systems: Theory and Applications, Vol. 29(3), pp. 367-392, 2019.

Handling variability and incompleteness of biological data by flexible nets: a case study for Wilson disease PDF
J. Júlvez, D. Dikicioglu, S. G. Oliver
npj Systems Biology and Applications, 4:7, 2018.

Fluid approximation of Petri net models with relatively small populations PDF
E. Fraca, J. Júlvez, M. Silva
Discrete Event Dynamic Systems, Vol. 27(3), pp. 525-546, 2017.

A straightforward method to compute average stochastic oscillations from data samples PDF
J. Júlvez
BMC Bioinformatics, Vol. 16:333, 2015.

Hybrid and Hybrid Adaptive Petri Nets: on the computation of a Reachability Graph PDF
E. Fraca, J. Júlvez, M. Silva
Nonlinear Analysis: Hybrid Systems, Vol. 16, pp. 24-39, 2015.

On the fluidization of Petri nets and marking homothecy PDF
E. Fraca, J. Júlvez, M. Silva
Nonlinear Analysis: Hybrid Systems, Vol. 12(1), pp. 3-19, 2014.

ON/OFF strategy based minimum-time control of continuous Petri nets PDF
L. Wang, C. Mahulea, J. Júlvez, M. Silva
Nonlinear Analysis: Hybrid Systems, Vol. 12(1), pp. 50-65, 2014.

Event-Driven Model Predictive Control of Timed Hybrid Petri Nets PDF
J. Júlvez, S. Di Cairano, A. Bemporad, C. Mahulea
International Journal of Robust and Nonlinear Control, Vol. 24(12), pp. 1724-1742, 2014.

A Control Method for Distributed Continuous Mono-T-Semiflow Petri nets PDF
H. Apaydin-Özkan, C. Mahulea, J. Júlvez, M. Silva
International Journal of Control, Vol. 87(2), pp. 223-234, 2013.

Quantification and Compensation of the Impact of Faults in System Throughput PDF
R. Rodríguez, J. Júlvez, J. Merseguer
Journal of Risk and Reliability, Vol. 227(6), pp. 614-628, 2013.

On the Performance Estimation and Resource Optimisation in Process Petri Nets PDF
R. Rodríguez, J. Júlvez, J. Merseguer
IEEE Transactions on Systems, Man, and Cybernetics: Systems, Vol. 43(6), pp. 1385-1398, 2013.

Minimum-time Decentralized Control of Choice-Free Continuous Petri Nets PDF
L. Wang, C. Mahulea, J. Júlvez, M. Silva
Nonlinear Analysis: Hybrid Systems, Vol. 7(1), pp. 39-53, 2013.

Evaluation of sustained stochastic oscillations by means of a system of differential equations PDF
J. Júlvez, M. Kwiatkowska, G. Norman, D. Parker
International Journal of Computers and Applications, Vol. 19(2), pp. 101-111, 2012.

SimHPN: a MATLAB toolbox for simulation, analysis and design with hybrid Petri nets PDF
J. Júlvez, C. Mahulea, C.R. Vázquez
Nonlinear Analysis: Hybrid Systems, Vol. 6(2), pp. 806-817, 2012.

On Fluidization of Discrete Event Models: Observation and Control of Continuous Petri nets PDF
M. Silva, J. Júlvez, C. Mahulea, C.R. Vázquez
Discrete Event Dynamic Systems: Theory and Applications, Vol. 21(4), pp. 427-497, 2011.

A Scheduling Strategy for Synchronous Elastic Designs PDF
J. Carmona, J. Júlvez, J. Cortadella, M. Kishinevsky
Fundamenta Informaticae, Vol. 108(1-2), pp.1-21, 2011.

Approaching Minimum Time Control of Timed Continuous Petri nets PDF
H. Apaydin-Özkan, J. Júlvez, C. Mahulea, M. Silva
Nonlinear Analysis: Hybrid Systems, Vol. 5(2), pp.136-148, 2011.

A continuous Petri net approach for model predictive control of traffic systems PDF
J. Júlvez, R. Boel
IEEE Transactions on Systems, Man, and Cybernetics, Part A: Systems and Humans, Vol 40(4), pp. 686-697, 2010.

On the performance evaluation of multi-guarded marked graphs with single-server semantics PDF
J. Júlvez, J. Cortadella, M. Kishinevsky
Discrete Event Dynamic Systems: Theory and Applications, Vol 20(3), pp.377-407, 2010.

Event-driven optimization-based control of hybrid systems with integral continuous-time dynamics PDF
S. Di Cairano, A. Bemporad, J. Júlvez
Automatica, Vol. 45(5), pp. 1243-1251, 2009.

On Observability and Design of Observers in Timed Continuous Petri Net Systems PDF
J. Júlvez, E. Jiménez, L. Recalde, M. Silva
IEEE Transactions on Automation Science and Engineering, Vol. 5(3), pp. 532-537, 2008.

Deadlock-freeness analysis of continuous mono-T-semiflow Petri nets PDF
J. Júlvez, L. Recalde, M. Silva
IEEE Transactions on Automatic Control, Vol. 51(9), pp. 1472-1481, 2006.

Steady state performance evaluation of continuous mono-T-semiflow Petri nets PDF
J. Júlvez, L. Recalde, M. Silva
Automatica,Vol. 41(4), pp. 605-616, 2005.

Marking estimation of Petri nets with pairs of nondeterministic transitions PDF
A. Giua, C. Seatzu, J. Júlvez
Asian Journal of Control, Special Issue on Control of Discrete Event Systems, Vol. 6(2), pp. 270-280, June 2004.



Book chapters



Introduction to fluid Petri nets PDF
C. Renato Vázquez, C. Mahulea, J. Júlvez, M. Silva
Lecture Notes in Control and Information Sciences, Vol. 433, pp. 365-386, 2013.

Continuous Petri nets: Observability and Diagnosis PDF
C. Mahulea, J. Júlvez, C. Renato Vázquez, M. Silva
Lecture Notes in Control and Information Sciences, Vol. 433, pp. 387-406, 2013.

Continuous Petri nets: controllability and control PDF
J. Júlvez, C. Renato Vázquez, C. Mahulea, M. Silva
Lecture Notes in Control and Information Sciences, Vol. 433, pp. 407-428, 2013.

Elasticity and Petri nets PDF
J. Cortadella, M. Kishinevsky, D. Bufistov, J. Carmona, J. Júlvez
Special Issue of Lecture Notes in Computer Science, Transactions on Petri Nets and Other Models of Concurrency, Vol. 5100, pp. 221-250, 2008.



Conference papers



Modeling Uncertain Biomass Composition in Genome-Scale Metabolic Models with Flexible Nets (preprint)
T. Joven, J. Lázaro;l, J. Júlvez
20th IEEE International Conference on Quantitative Evaluation of Systems (QEST2023).

Modeling and performance analysis of an industrial transport platform manufacturing process (preprint)
C. Arzola, D. Latorre, G. Sacramento, C. Mahulea, J. Júlvez
28th IEEE International Conference on Emerging Technologies and Factory Automation (ETFA2023).

Analysis and optimization of clinical pathways using timed continuous Petri nets (preprint)
C. Arzola, C. Mahulea, J. Júlvez
28th IEEE International Conference on Emerging Technologies and Factory Automation (ETFA2023).

On the Reachability Space and Deadlock-Freeness in Flexible Nets
J. Júlvez
62nd IEEE Conference on Decision and Control (CDC 2023).

On the computation of the minimum set of reactions for optimal growth in constraint-based models (preprint)
A. Oarga, J. Júlvez
61st IEEE Conference on Decision and Control (CDC 2022).

Extending the Modeling and Analysis Capabilities of Continuous Petri Nets by Flexible Nets (preprint)
J. Júlvez, S. G. Oliver
60th IEEE Conference on Decision and Control (CDC 2021).

Growth Dependent Computation of Chokepoints in Metabolic Networks (preprint)
A. Oarga, B. Bannerman, J. Júlvez
18th International Conference on Computational Methods in Systems Biology (CMSB2020). Lecture Notes in Computer Science, Vol. 12314, pp. 102-119.

fnyzer: a Python package for the analysis of Flexible Nets (preprint)
J. Júlvez, S. G. Oliver
18th International Conference on Computational Methods in Systems Biology (CMSB2020). Lecture Notes in Computer Science, Vol. 12314, pp. 349-355.

Structural and dynamical analysis of an integrated human/virus metabolic model provides insight to new treatment strategies against Covid-19
B. Bannerman, J. Júlvez, A. Oarga, T.L. Blundell, P. Moreno, R. A. Floto
27th Conference on Intelligent Systems for Molecular Biology (ISMB2020).

A novel modelling framework for the analysis of partially known biological systems
J. Júlvez, D. Dikicioglu, S. G. Oliver
British Yeast Group (BYG2016).

A Petri net model of the protein machinery of the yeast cell factory
J. Júlvez, D. Dikicioglu, S. G. Oliver
27th International Conference on Yeast Genetics and Molecular Biology (YEAST2015).

MATLAB tools for the analysis of Petri net models PDF
J. Júlvez, M. H. Matcovschi, O. Pastravanu
19th IEEE International Conference on Emerging Technologies and Factory Automation (ETFA2014).

The ''bound reaching problem'' on the fluidization of timed Petri nets PDF
E. Fraca, J. Júlvez, M. Silva
12th International Workshop on Discrete Event Systems (WODES2014).

On the average dynamical behaviour of stochastic population models PDF
J. Júlvez
19th world congress of the International Federation of Automatic Control (IFAC2014).

A simulation approach to detect oscillating behaviour in stochastic population models PDF
J. Júlvez
11th Computational Methods in Systems Biology (CMSB2013), extended abstract.

Control of continuous Petri nets using ON/OFF based method PDF
L. Wang, C. Mahulea, J. Júlvez, M. Silva
11th International Workshop on Discrete Event Systems (WODES2012).

Marking homothetic monotonicity and fluidization of untimed Petri nets PDF
E. Fraca, J. Júlvez, M. Silva
11th International Workshop on Discrete Event Systems (WODES2012).

PeabraiN: A PIPE Extension for Performance Estimation and Resource Optimisation PDF
R. Rodríguez, J. Júlvez, J. Merseguer
12th International Conference on Application of Concurrency to System Design (ACSD2012).

Analysis and Simulation of Manufacturing Systems using SimHPN toolbox PDF
J. Júlvez, C. Mahulea, C.R. Vázquez
7th Annual IEEE Conference on Automation Science and Engineering (CASE2011).

On reachability and deadlock-freeness of Hybrid Adaptive Petri nets PDF
E. Fraca, J. Júlvez, C. Mahulea, M. Silva
18th world congress of the International Federation of Automatic Control (IFAC2011).

On State Estimation of Timed Choice-Free Petri Nets PDF
X. Wang, C. Mahulea, J. Júlvez, M. Silva
18th world congress of the International Federation of Automatic Control (IFAC2011).

Decentralized Control of Large Scale Systems Modeled with Continuous Marked Graphs PDF
L. Wang, C. Mahulea, J. Júlvez, M. Silva
18th world congress of the International Federation of Automatic Control (IFAC2011).

A systematic approach to evaluate sustained stochastic oscillations PDF
J. Júlvez, M. Kwiatkowska, G. Norman, D. Parker
3rd International Conference on Bioinformatics and Computational Biology (BICoB 2011).

Minimum-time Control for Structurally Persistent Continuous Petri Nets PDF
L. Wang, C. Mahulea, J. Júlvez, M. Silva
49th IEEE Conference on Decision and Control (CDC 2010).

An Iterative Control Method for Distributed Continuous Petri nets with Tree Structure PDF
H. Apaydin-Özkan, C. Mahulea, J. Júlvez, M. Silva
49th IEEE Conference on Decision and Control (CDC 2010).

SimHPN: a MATLAB toolbox for continuous Petri nets PDF
J. Júlvez, C. Mahulea
10th International Workshop on Discrete Event Systems (WODES 2010).

Accurate Performance Estimation for Stochastic Marked Graphs by Bottleneck Regrowing PDF
R. Rodríguez, J. Júlvez
7th European Performance Engineering Workshop (EPEW 2010).

A Control Method for Timed Distributed Continuous Petri nets PDF
H. Apaydin-Özkan, J. Júlvez, C. Mahulea, M. Silva
American Control Conference (ACC 2010).

An Efficient Heuristics for Minimum Time Control of Continuous Petri nets PDF
H. Apaydin-Özkan, J. Júlvez, C. Mahulea, M. Silva
3rd IFAC Conference on Analysis and Design of Hybrid Systems (ADHS 2009).

Basic Qualitative Properties of Petri Nets with Multi-Guarded Transitions PDF
J. Júlvez
American Control Conference (ACC 2009).

Retiming and recycling for elastic systems with early evaluation PDF
D. Bufistov, J. Cortadella, M. Galceran-Oms, J. Júlvez, M. Kishinevsky
46th Design Automation Conference (DAC 2009).

Scheduling synchronous elastic designs PDF
J. Carmona, J. Júlvez, J. Cortadella, M. Kishinevsky
Application of Concurrency to System Design 2009 (ACSD 2009).

Performance optimization of elastic systems using buffer resizing and buffer insertion PDF
D. Bufistov, J. Júlvez, J. Cortadella
2008 International Conference on Computer-Aided Design (ICCAD 2008).

Polynomial Throughput Bounds for Equal Conflict Petri Nets with Multi-Guarded Transitions PDF
J. Júlvez
5th International Conference on the Quantitative Evaluation of Systems (QEST 2008), IEEE Computer Society.

Event-based model predictive control and verification of integral continuous-time hybrid automata PDF
A. Bemporad, S. D. Cairano, J. Júlvez
Hybrid Systems: Computation and Control. Lecture Notes in Computer Science, volume 3927, pages 93-107. Springer-Verlag, 2006.

Performance analysis of concurrent systems with early evaluation PDF
J. Júlvez, J. Cortadella, M. Kishinevsky
2006 International Conference on Computer-Aided Design (ICCAD 2006).

On Controllability of Timed Continuous Petri Net Systems: the Join Free Case PDF
E. Jiménez, J. Júlvez, L. Recalde, M. Silva
44th IEEE Conference on Decision and Control (2005 Joint CDC-ECC).

Event-Driven Optimal Control of Integral Continuous-Time Hybrid Automata PDF
A. Bemporad, S. D. Cairano, J. Júlvez
44th IEEE Conference on Decision and Control (2005 Joint CDC-ECC).

Modelling and controlling traffic behaviour with continuous Petri nets PDF
J. Júlvez, R. Boel
16th triennial world congress of the International Federation of Automatic Control (IFAC2005).

Event-Driven Optimal Control of Continuous Petri Nets PDF
J. Júlvez, A. Bemporad, L. Recalde, M. Silva
43rd IEEE Conference on Decision and Control (CDC 2004).

Design of Observers for Timed Continuous Petri Net Systems PDF
J. Júlvez, E. Jiménez, L. Recalde, M. Silva
IEEE 2004 Int. Conf. on Systems, Man, and Cybernetics (SMC 2004).

Relaxed continuous views of discrete event systems: considerations on Forrester diagrams and Petri nets PDF
E. Jiménez, J. Júlvez, L. Recalde, M. Silva
IEEE 2004 Int. Conf. on Systems, Man, and Cybernetics (SMC 2004).

On Observability in Timed Continuous Petri Net Systems PDF
J. Júlvez,  E. Jiménez, L. Recalde, M. Silva
First International Conference on the Quantitative Evaluation of Systems (QEST 2004), IEEE Computer Society.

Observers for nondeterministic lambda-free labeled Petri nets PDF
D. Corona, A. Giua, C. Seatzu, J. Júlvez
9th IEEE International Conference on Emerging Technologies and Factory Automation (ETFA2003).

Marking Estimation of Petri Nets based on Partial Observation PDF
A. Giua, J. Júlvez, C. Seatzu
American Control Conference (ACC 2003).

On reachability in autonomous continuous Petri net systems PDF
J. Júlvez, L. Recalde, M. Silva
24th International Conference on Application and Theory of Petri Nets (ICATPN03). Lecture Notes in Computer Science, volume 2679, pages 221-240, 2003.

On deadlock-freeness analysis of autonomous and timed continuous mono-T-semiflow nets PDF
J. Júlvez, L. Recalde, M. Silva
41st IEEE Conference on Decission and Control (CDC 2002).

Steady State Performance evaluation for some continuous Petri nets PDF
L. Recalde, J. Júlvez, M. Silva
15th triennial world congress of the International Federation of Automatic Control (IFAC2002), N 479.



Algebraic Techniques for the Analysis and Control of Continuous Petri Nets
PhD Thesis (1.4MB) PDF