Prof. Dr. Jorge Goncalves
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| Faculty or Centre | Luxembourg Centre for Systems Biomedicine | ||||
| Department | Systems Control | ||||
| Postal Address |
Université du Luxembourg 6, avenue du Swing L-4367 Belvaux |
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| Campus Office | BioTech II, 0.07 | ||||
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| Telephone | (+352) 46 66 44 6519 | ||||
| Fax | (+352) 46 66 44 36519 | ||||
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Prof. Dr. Jorge Goncalves (LCSB)
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Principal Investigator in the Systems Control group (Goncalves Lab) and Principal Research Associate at the University of Cambridge, Department of Plant Sciences.
Last updated on: Wednesday, 26 August 2020
Academic Experience
| University of Luxembourg, Luxembourg |
| since September 2013: Professor, Luxembourg Centre for Systems Biomedicine |
| June - December 2010: Visiting Professor, Luxembourg Centre for Systems Biomedicine |
| University of Cambridge, Cambridge, UK |
| since September 2019: Principal Research Associate, Department of Plant Sciences |
| November 2014 - September 2019: Principal Research Associate, Department of Engineering |
| October 2012 - November 2014: Reader, Department of Engineering |
| April 2004 - September 2012: University Lecturer, Department of Engineering |
| October 2005 - November 2014: Pembroke College Fellow |
| California Institute of Technology, Pasadena, CA, USA |
| January - October 2011: Visiting Professor, Control and Dynamical Systems |
| April 2001 - March 2004: Postdoctoral Scholar, Control and Dynamical Systems |
| Massachusetts Institute of Technology, Cambridge, MA, USA |
| Fall 2000 - Spring 2001: Postdoctoral Fellow, Dept of Electrical Engineering and Computer Science |
| Fall 1993 - Summer 2000: Research Assistant |
Education
| Massachusetts Institute of Technology, Cambridge, MA USA |
| September 2000: Doctor of Philosophy in Electrical Engineering and Computer Science. Dissertation Title: "Constructive Global Analysis of Hybrid Systems". Advisors: Professors Alexandre Megretski and Munther Dahleh. |
| June 1995: Master of Science in Electrical Engineering and Computer Science. Dissertation Title: "Robust Stability of a Class of Nonlinear Systems". Advisor: Professor Munther Dahleh. |
| University of Porto, Faculty of Engineering, Porto, Portugal |
| August 1993: Licenciatura (5-year S.B.) in Electrical Engineering and Computer Science. Senior design project: "Optimal Control: Applications and Algorithms". Supervisor: Professor Fernando Lobo Pereira. |
Download the full CV (August 2020)
Last updated on: 26 Aug 2020
In press
Network Identifiability from Intrinsic Noise; ;
in IEEE Transactions on Automatic Control (in press)
A minimal realization technique for the dynamical structure function of a class of LTI systems; ; ; ; ;
in IEEE Transactions on Control of Network Systems (in press)
2021
Modelling COVID-19 dynamics and potential for herd immunity by vaccination in Austria, Luxembourg and Sweden; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Modelling COVID-19 dynamics and potential for herd immunity by vaccination in Austria, Luxembourg and Sweden (2021)
Almost global convergence to practical synchronization in the generalized Kuramoto model on networks over the n-sphere; ; ;
in Communications Physics (2021), 4
Dynamical SPQEIR model assesses the effectiveness of non-pharmaceutical interventions against COVID-19 epidemic outbreaks.; ; ; ; ; ; ; ; ;
in PloS one (2021), 16(5), 0252019
Automated Deep Learning-based Segmentation of Brain, SEEG and DBS Electrodes on CT Images.; ; ; ; ; ;
in Bildverarbeitung für die Medizin 2021 (2021)
2020
Gene regulatory network inference from sparsely sampled noisy data; ; ; ;
in Nature Communications (2020), 11
FastField: An Open-Source Toolbox for Efficient Approximation of Deep Brain Stimulation Electric Fields; ; ; ;
in NeuroImage (2020)
Analysis and visualisation of tremor dynamics in deep brain stimulation patients; ; ; ;
in Current Directions in Biomedical Engineering (2020), 6(3), 4
A rule-based expert system for real-time feedback-control in deep brain stimulation; ; ; ;
in Current Directions in Biomedical Engineering (2020), 6(3), 4
Robust synchronization of heterogeneous robot swarms on the sphere; ;
in 2020 59th IEEE Conference on Decision and Control (CDC) (2020)
Assessing suppression strategies against epidemicoutbreaks like COVID-19: the SPQEIR model; ; ; ; ; ; ; ; ;
E-print/Working paper (2020)
Causal dynamical modelling predicts novel regulatory genes of FOXP3 in human regulatory T cells; ; ; ; ; ; ; ; ;
E-print/Working paper (2020)
2019
Linear system identification from ensemble snapshot observations;
in Proceedings of the IEEE Conference on Decision and Control (2019, December)
From Diagnosing Diseases to Predicting Diseases; ; ; ; ;
in Betz, Ulrich A.K. (Ed.) Curious2018 (2019)
A multifactorial evaluation framework for gene regulatory network reconstruction; ; ;
in Foundations of Systems Biology in Engineering (2019)
Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator; ; ; ; ; ; ; ; ; ; ; ; ;
in PLoS Computational Biology (2019)
2018
PaCER - A fully automated method for electrode trajectory and contact reconstruction in deep brain stimulation; ; ; ;
in NeuroImage: Clinical (2018), 17
Post-operative deep brain stimulation assessment: Automatic data integration and report generation; ; ; ; ;
in Brain Stimulation (2018)
Almost Global Consensus on the n-Sphere; ;
in IEEE Transactions on Automatic Control (2018), 63(6), 1664-1675
Towards almost global synchronization on the Stiefel manifold; ;
in Proceedings of the 57th IEEE Conference on Decision and Control (2018)
A lifting method for analyzing distributed synchronization on the unit sphere; ; ;
in Automatica (2018)
Dynamic controllers for column synchronization of rotation matrices: a QR-factorization approach; ;
in Automatica (2018), 93
2017
Shape-aware surface reconstruction from sparse 3D point-clouds; ; ; ; ; ; ; ; ;
in Medical Image Analysis (2017), 38
Experimental design trade-offs for gene regulatory network inference: an in silico study of the yeast Saccharomyces cerevisiae cell cycle; ; ;
in Proceedings of the 56th IEEE Conference on Decision and Control (2017, December)
Distributed methods for synchronization of orthogonal matrices over graphs; ;
in Automatica (2017), 80
Distributed synchronization of euclidean transformations with guaranteed convergence; ;
in 56th IEEE Conference on Decision and Control (2017, December)
Local Lyapunov Functions for Consensus in Switching Nonlinear Systems; ;
in IEEE Transactions on Automatic Control (2017)
On definition and inference of nonlinear Boolean dynamic networks; ; ;
in On definition and inference of nonlinear Boolean dynamic networks (2017, December)
2016
Linear Shape Deformation Models with Local Support using Graph-based Structured Matrix Factorisation; ; ; ;
in Linear Shape Deformation Models with Local Support using Graph-based Structured Matrix Factorisation (2016)
Fast Correspondences for Statistical Shape Models of Brain Structures; ; ; ; ; ;
in SPIE Medical Imaging (2016, March)
Global Optimality Bounds for ICA Algorithms; ;
in 22nd International Symposium on Mathematical Theory of Networks and Systems (2016)
Robust stability analysis of active voltage control for high-power IGBT switching by Kharitonov's theorem; ; ; ;
in IEEE Transactions on Power Electronics (2016), 31(3), 2584-2595
Global converegence properties of a consensus protocol on the n-sphere;
in Proceedings of the 55th IEEE Conference on Decision and Control (2016, December)
Global and invariant aspects of consensus on the n-sphere; ; ;
in Proceedings of the 22nd International Symposium on Mathematical Theory of Networks and Systems (2016, July)
Linear identification of nonlinear systems: A lifting technique based on the Koopman operator;
in Proceedings of the 55th IEEE Conference on Decision and Control (2016, December)
Optimising time-series experimental design for modelling of circadian rhythms: the value of transient data; ;
in IFAC-PapersOnLine (2016, October)
A Sparse Bayesian Approach to the Identification of Nonlinear State-Space Systems; ; ;
in IEEE Transaction on Automatic Control (2016), 61(1), 182-187
Expression of the Parkinson’s Disease-Associated Gene Alpha-Synuclein is Regulated by the Neuronal Cell Fate Determinant TRIM32; ; ; ; ; ; ;
in Molecular Neurobiology (2016)
Shaping Pulses to Control Bistable Monotone Systems Using Koopman Operator; ;
in 10th IFAC Symposium on Nonlinear Control Systems (2016, August)
An Iterative Projection method for Synchronization of Invertible Matrices Over Graphs; ; ;
in 22nd International Symposium on Mathematical Theory of Networks and Systems (2016)
Inverse Problems for Matrix Exponential in System Identification: System Aliasing; ;
in 22nd International Symposium on Mathematical Theory of Networks and Systems (2016)
2015
Shape-aware 3D Interpolation using Statistical Shape Models; ; ; ; ;
in Symposium on Statistical Shape Models and Applications, Delemont, Switzerland, October 2015 (2015, October)
A solution for Multi-Alignment by Transformation Synchronisation; ; ; ; ;
in The proceedings of the IEEE Conference on Computer Vision and Pattern Recognition (CVPR) (2015)
Transitively Consistent and Unbiased Multi-Image Registration Using Numerically Stable Transformation Synchronisation; ; ; ; ; ;
in MIDAS Journal (2015)
Assessing the effect of unknown widespread perturbations in complex systems using the mu-gap; ;
in EEE Conference on Decision and Control, Osaka, Japan, December 2015 (2015, December)
Identifying Biochemical Reaction Networks From Heterogeneous Datasets; ; ; ;
in IEEE Conference on Decision and Control, Osaka, Japan, December 2015 (2015, December)
Critical transitions in chronic disease: transferring concepts from ecology to systems medicine; ; ; ;
in Current Opinion in Biotechnology (2015), 34
Dynamical Structure Function and Granger Causality: Similarities and Differences; ; ;
in 54th IEEE Conference on Decision and Control, Osaka, Japan, December 15-18, 2015 (2015)
2014
Understanding and Predicting Biological Networks Using Linear System Identi cation; ; ; ;
in Kulkarni, V.; Stan, G.; Raman, K. (Eds.) A Systems Theoretic Approach to Systems and Synthetic Biology I: Models and System Characterizations (2014)
Biexcitability and Bursting Mechanisms in Neural and Genetic Circuits;
in The proceedings of the 19th World Congress The International Federation of Automatic Control (2014)
Analysis of synchronizing biochemical networks via incremental dissipativity; ;
in Kulkarni, V.; Stan, G.; Raman, K. (Eds.) A Systems Theoretic Approach to Systems and Synthetic Biology II: Analysis and Design of Cellular Systems (2014)
Network Reconstruction from Intrinsic Noise: Non-Minimum-Phase Systems; ;
in The proceedings of the The 19th World Congress of The International Federation of Automatic Control (2014)
Network Reconstruction from Intrinsic Noise; ;
in The proceedings of the American Control Conference (2014)
H2 Norm Based Network Volatility Measures; ; ;
in The proceedings of the American Control Conference (2014)
2013
Robust Signal-Structure Reconstruction; ; ;
in The proceedings of the IEEE 52nd Annual Conference on Decision and Control (2013)
Network reconstruction using knock-out and over-expression data; ;
in The proceedings of the 2013 European Control Conference (ECC) (2013)
Real-time Fault Diagnosis for Large-Scale Nonlinear Power Networks; ; ; ;
in The proceedings of the IEEE 52nd Annual Conference on Decision and Control (2013)
Distributed Kalman Filter with minimum-time covariance computation; ; ;
in The proceedings of the IEEE 52nd Annual Conference on Decision and Control (2013)
2012
Dynamical structure function identifiability conditions enabling signal structure reconstruction; ; ; ; ; ; ; ; ;
in The proceedings of the 51st IEEE Conference on Decision and Control (CDC) (2012, December)
In-silico Robust Reconstruction of the Per-Arnt-Sim Kinase Pathway using Dynamical Structure Functions; ; ; ; ; ; ; ; ; ; ;
Scientific Conference (2012, October)
Global State Synchronization in Networks of Cyclic Feedback Systems; ; ;
in IEEE Transactions on Automatic Control (2012), 57(2), 478-483
Robust network reconstruction in polynomial time; ;
in The proceedings of the 51st IEEE Conference on Decision and Control (2012)
EARLY FLOWERING4 Recruitment of EARLY FLOWERING3 in the Nucleus Sustains the Arabidopsis Circadian Clock; ; ; ; ; ; ; ; ; ; ; ;
in Plant Cell (2012), 24(2), 428-443
Reconstruction of arbitrary biochemical reaction networks: A compressive sensing approach; ; ;
in The proceedings of the 51st IEEE Conference on Decision and Control (2012)
Quantifying crosstalk in biochemical systems; ; ; ;
in The proceedings of the 51st IEEE Conference on Decision and Control (2012)
Decentralised minimal-time dynamic consensus; ; ;
in The proceedings of the 2012 American Control Conference (ACC) (2012)
2011
The circadian oscillator gene GIGANTEA mediates a long-term response of the Arabidopsis thaliana circadian clock to sucrose; ; ; ; ; ; ; ; ; ;
in PNAS (2011), 108(12), 51045109
Mathematical relationships between representations of structure in linear interconnected dynamical systems; ; ;
in The proceedings of the 2011 American Control Conference (ACC) (2011)
Decentralised minimal-time consensus; ; ; ;
in The proceedings of the 2011 50th IEEE Conference on Decision and Control and European Control Conference (CDC-ECC) (2011)
2010
Correct biological timing in Arabidopsis requires multiple light-signaling pathways.; ; ; ; ; ; ;
in Proceedings of the National Academy of Sciences of the United States of America (2010), 107(29), 13171-13176
Understanding uctuations and limitations in a multi-sector model of the economy with delays and intrinsic noise; ; ;
in American Control Conference (2010, July)
Constructive Synchronization of Networked Feedback Systems; ;
in The proceedings of the 49th IEEE Conference on Decision and Control (CDC) (2010)
A cost-effective atomic force microscope for undergraduate control laboratories;
in IEEE Transactions on Education (2010), 53(2), 328-334
Fluctuations and Limitations of a Multi-Sector Economic Model with Delays; ; ;
in The proceedings of the 2010 American Control Conference (ACC) (2010)
Representing Structure in Linear Interconnected Dynamical Systems; ; ;
in The proceedings of the 49th IEEE Conference on Decision and Control (CDC) (2010)
Minimal-time network reconstruction for DTLTI systems;
in The proceedings of the 49th IEEE Conference on Decision and Control (CDC) (2010)
Minimal-time uncertain output final value of unknown DT-LTI systems with application to the decentralised network consensus problem; ; ; ;
Scientific Conference (2010)
Robust dynamical network reconstruction; ; ;
in The proceedings of the 49th IEEE Conference on Decision and Control (CDC) (2010)
2009
Control Theory and Systems Biology;
in Iglesias, P. A.; Ingalls, B. P. (Eds.) Dynamical structure Functions in Network Reconstruction (2009)
A Linear Programming Approach to Parameter Fitting for the Master Equation;
in IEEE Transactions on Automatic Control (2009), 54(10), 2451-2455
A Comparison of Network Reconstruction Methods for Chemical Reaction Networks; ; ; ; ; ; ;
in The proceedings of the Third International Conference on Foundations of Systems Biology in Engineering (FOSBE 2009) (2009)
Network structure preserving model reduction with weak a priori structural information; ; ;
in The proceedings of the Joint 48th IEEE Conference on Decision and Control and 28th Chinese Control Conference (2009)
Network Structure Preserving Model Reduction: Results of a Simulation Study; ; ;
in The proceedings of the Third International Conference on Foundations of Systems Biology in Engineering (FOSBE 2009) (2009)
Decentralized final value theorem for discrete-time LTI systems with application to minimal time distributed consensus; ; ;
in The proceedings of the Joint 48th IEEE Conference on Decision and Control and 28th Chinese Control Conference (2009)
Minimal dynamical structure realisations with application to network reconstruction from data; ; ;
in The proceedings of the Joint 48th IEEE Conference on Decision and Control and 28th Chinese Control Conference (2009)
2008
Necessary and sufficient conditions for dynamical structure reconstruction of LTI networks;
in IEEE Transactions on Automatic Control (2008), 53(7), 1670-1674
Reachability analysis of continuous-time piecewise affine systems;
in Automatica (2008), 44(12), 3189-3194
Robust synchronization in networks of cyclic feedback systems; ;
in The proceedings of the 47th IEEE Conference on Decision and Control (2008)
Bacteria online - University of Cambridge iGEM 2007 project; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
Scientific Conference (2008)
Dynamical structure analysis of sparsity and minimality heuristics for reconstruction of biochemical networks; ; ; ;
in The proceedings of the 47th IEEE Conference on Decision and Control (2008)
Bimodal and hysteretic expression in mammalian cells from a synthetic gene circuit; ; ; ; ; ; ;
in Public Library of Science ONE (2008), 3(6),
Global asymptotic stability of the limit cycle in piecewise linear versions of the Goodwin oscillator; ;
in Proceedings of the 17th IFAC World Congress (2008)
Control theory methods for macro models with stochastic micro foundations; ; ;
Scientific Conference (2008)
Heterogeneous agent models in economics: a study of heterogeneous productivity of sectors; ;
in Proceedings of the 2008 American Control Conference (2008)
2007
New tools for self-organised pattern formation; ; ; ; ; ; ; ; ; ;
in IET Synthetic Biology (2007), 1(1.2), 29-31
The Arabidopsis circadian clock incorporates a cADPR-based feedback loop; ; ; ; ; ; ; ; ; ; ;
in SCIENCE (2007), 318(5857), 1789-1792
Dynamical structure functions for the reverse engineering of LTI networks; ;
in Proceedings of the 46th IEEE Conference on Decision and Control (2007)
Output synchronisation in networks of cyclic biochemical oscillators; ; ;
in Proceedings of the 2007 American Control Conference (ACC 2007) (2007)
Mathematical models of circadian Ca2+ oscillations; ;
in Proceedings of the eighth International Conference on Systems Biology (2007)
Existence and stability of limit cycles in a macroscopic neuronal population model; ;
in Physica D: Nonlinear Phenomena (2007), 233(1), 39-65
Reconstruction of biological networks through gene silencing and overexpression; ; ;
in Proceedings of the eighth International Conference on Systems Biology (2007)
2006
Clinical data based optimal STI strategies for HIV: a reinforcement learning approach; ; ;
in Proceedings of the IEEE Conference on Decision and Control (2006)
2005
Regions of stability for limit cycle oscillations in piecewise linear systemsin IEEE Transactions on Automatic Control (2005), 50(11), 1877-1882
Reachability analysis of continuous time piecewise linear systems;
in Proceedings of the 44th IEEE Conference on Decision and Control and European Control Conference (2005)
Application of robust model validation using SOSTOOLS to the study of G-Protein signalling in yeast; ; ; ; ; ; ;
Scientific Conference (2005)
2004
Drosophila circadian rhythms: stability robustness analysis and model reduction;
in Proceedings of the 16th International Symposium on Mathematical Theory of Networks and Systems (2004)
Finding surface Lyapunov functions through sum-of-squares Programming;
in Proceedings of the American Control Conference 2004 (2004)
2003
Regions of Stability for Limit Cycles of Piecewise Linear Systemsin Proceedings of the 42th IEEE Conference on Decision and Control (2003)
Global Asymptotic Stability of Oscillations with Sliding Modesin Proceedings of the 15th IFAC World Congress (2003)
Global analysis of piecewise linear systems using impact maps and quadratic surface Lyapunov functions; ;
in IEEE Transactions on Automatic Control (2003), 48(12), 2089-2106
2002
L2-gain of double integrators with saturation nonlinearityin IEEE Transactions on Automatic Control (2002), 47(12), 2063-2068
L2-gain of double integrators with saturation nonlinearityin Proceedings of the 15th IFAC World Congress (2002)
Quadratic Surface Lyapunov Functions in the Analysis of Feedback Systems with Double Integrators and Saturationsin Proceedings of the 10th IEEE Mediterranean Conference on Control and Automation (2002)
2001
Quadratic Surface Lyapunov Functions in Global Stability Analysis of Saturation Systemsin Proceedings of the American Control Conference (2001)
Global stability of relay feedback systems; ;
in IEEE Transactions on Automatic Control (2001), 46(4), 550--562
Global analysis of piecewise linear systems using impact maps and quadratic surface Lyapunov functions; ;
in Proceedings of the European Control Conference (ECC) 2001 (2001)
2000
Global stability analysis of on/off systemsin Proceedings of the 39th IEEE Conference on Decision and Control (2000)
Global stability of relay feedback systems; ;
in Proceedings of the IEEE American Control Conference (2000 ACC) (2000)
1998
Necessary conditions for robust stability of a class of nonlinear systems;
in Automatica (1998), 34(6), 705-714
Semi-global analysis of relay feedback systems; ;
in Proceedings of the 37th IEEE Conference on Decision and Control (1998)
1995
Necessary and sufficient conditions for robust stability of a class of nonlinear systems;
in Proceedings of the 34th IEEE Conference on Decision and Control (1995)
