Research Council KU Leuven

Interdisciplinary Research Project (IDO): Development of a generic mathematical methodology for inference of genetic networks, 2001-2006 ; Partners : Prof. J. Vanderleyden, Prof. J. Thevelein, K.U.Leuven

Concerted Research Action : MIPS : Model-base Information Processing Systems (1995-2000) (BOF 195/03)

BIL99/18 : Identification of linear and nonlinear systems (1999-2002)
BIL00/17/Polen (2000-2001)

Concerted Research Action : Mefisto-666 : Mathematical Engineering for Information and Communication Systems Technology (2001-2005) (BOF GOA/2000/06)

Genetic Network Inference : Development of a generic methodology for genetic network inference (2001-2006)

Concerted Research Action: AMBioRICS: Algorithms for Medical and Biological Research, Integration, Computations and Software (2005-2009) (BOF GOA/2005)

Excellence Financing: K.U.Leuven Center for Computational Systems Biology (2005-2010) (EF/05/07)

Excellence Financing: OPTEC: Optimization in Engineering (2005-2010) (EF/05/06)

Industrial Research Fund (Leverage project): SCORES4CHEM:Systems, Control and Optimization: Research, Education and Services for the Chemical Industry (Promotor: J. Van Impe, BioTeC) (2008 & 2009-2013)

Biomarker discovery in endometriosis using a transcriptomic/proteomic approach (2009-2013) (OT/09/052)

MaNet : Mathematatical engineering tools for Networks : Data driven mining, identification, control and optimization (2009-2014) (GOA-10-009)

Omics based clinical decision support : Large scale and online computing to advance (omics-based) clinical decision support after life sciences research (2014-2015)

Industrial Research Fund (IOF) : LOGIC – insulin – clinical validation and filing for regulatory approval of a blood glucose regulator for the intensive care unit (2011-2012) (IOF/HB/10/039)

Industrial Research Fund (IOF) : Endometrios – proteomics – Noninvasive diagnosis of endometriosis is based on plasma proteomics analysis (2013-2013) (IOF-HB-D)

Industrial Research Fund (IOF) : SCORES4CHEM : Saftey, control and optimization : Research, education and services for the chemical industry

C1 Funding : Multidimensional dynamical systems, multi-linear numerical algorithms and tensor data (2015-2022) (BOF-C1-C16/15/059)

C2 Funding : Optimal planning of surgery for gynaecologic patients (2021-2025)

C2 Funding : Immune profiling of CIDP (IPoC) (subcontracting) (2019-2023)

C2 Funding : Researching and valorizing Franco-Flemish polyphony with high-high-technology tools (2018-2022) (C24/18/022)

C3 Funding : AIDA : AI tools for curation of clinical registries (2021-2023) (C3/20/117)

C3 Funding : IOTA-AI : AI-assisted automated detection of ovarian cancer on ultrasound imaging (2021-2023) (C3/21/00316)

C3 Funding : MILAN : next-generation pathology by MILAN multiplex analysis and advanced trainable image analysis (2020-2022)

C3 Funding : Immune-profile-directed stratification of patients with rheumatoid arthritis (2018-2020)( (subcontracting) (C32/18/041)

C3 Funding : CDM : Clinical Data Miner – An electronic data capture software framework for supporting clinical research (2016-2018) (C32/16/013)

Several junior fellowships

Senior fellowships

  • Prof. Dr. Stephen Boyd, Stanford University, 1993 ;
  • Prof. Dr. Björn Ottersten, Stockholm (2000-2001)

Research Foundation – Flanders

FWO G.0292.95: Analysis and design of matrix algorithms for adaptive signal processing, system identification and control, based on concepts from continuous time system theory and differential geometry (1995-1998)

FWO G.0256.97: Numerical algorithms for subspace system identification : Extension towards specific applications (1997-2000)

FWO G.0240.99: Multilinear generalisations of the singular value decomposition and applications in signal processing and system identification (1999-2003)

FWO G.0115.01: Development of data-mining

algorithms for micro-array experiments in oncology (2001-2004)

FWO G.0197.02: Modelling and stabilizing electrical energy islands – virtual power plants (o.l.v. Prof. Belmans) (01/01/2002-31/12/2005)

FWO G.0407.02: Support vector machines and kernel methods : theory, algorithms and applications (2002-2005)

FWO G.0143.03: Advanced Techniques for system identification for the study of side-channels in cryptographic algorithms: Crypto-analysis and design (in coll. With prof. Bart Preneel) (01/01/2003 – 31/12/2006)(2003-2006)

FWO G.0491.03: Design of a control system for the optimisation of glycemia for intensive care patients (in coll with prof. Van den Berghe/Bouillon)(2003-2006)

FWO G.0413.03: Robust algorithms for the inference of regulatory networks from expression measurements and a priori biological information (in coll. With prof. Verschoren, RUCA);(2003-2006)

FWO G.0120.03: Quantuminformatics (in coll with prof. Verschelde, UG) (2003-2006)

FWO G.0388.03: Micro-arrays for the clinical policy of ovarium carcinomas (prom. Prof. Vergote, KUL) (2003-2006)

FWO G.0229.03: Development of a biological knowledge management system based on an ontology for the acquisition of a priori knowledge for bioinformatics algorithms (in coll. With prof. Meersman, VUB); (2003-2006)

FWO G.0241.04: Functional Genomics : Identification of novel functions, components and target genes for Sch9- or PKB-mediated signal transduction (in coll. with Prof. Winderickx, KUL); (2004-2007)

FWO G.0499.04: Integration of parametric robust methods and non-parametric kernel based methods (in coll. with Prof. Hubert, KUL); (2004-2007)

FWO G.0452.04: Developing new quantum algorithms (in coll. with Prof. Aerts, VUB) ; (2004-2007)

FWO G.0211.05: Identification of nonlinear systems and its applications to microwave systems (with Prof Schoukens, VUB) (2005-2008)

FWO G.0232.05: Aging, the metabolic syndrome and cardiovascular diseases: study in the swine. (with Prof. Holvoet, KUL) (2005-2008)

FWO G.0318.05: Development of a computational method for studying subfunctionalization by transcriptional divergence of duplicated plant genes. (with Prof. Van de Peer)(2005 -2008)

FWO G.0457.05: A clinicoproteomic study of patients with cervical and endometrial malignant tumours (with Prof. Vergote, KUL) (2005- 2008)

FWO G.0553.06: Identification of genes and their regulatory motifs that are involved in antiproliferative signaling induced by 1,25-dihydroxyvitamin D3 or in the tissue-selective activity of vitamin D analogs. (with Prof. Bouillon, Prof. Mathieu, KUL) (2006-2009)

FWO G.0302.07: Support Vector Machines and Kernel Based Learning: Advanced Algorithms (2007-2010)

FWO G.0557.08: Optimization and implementation of a control system aiming the normalization of glycemia of critically ill patients (with Prof. G. Van den Berghe, KUL)(2008-2011)

FWO G.0558.08: Moving horizon estimation: robust stability, robust performance and interaction with model predictive control (2008-2011)

FWO Research Community : ICCoS : Identification and Control of Complex Systems (1995-2000) (2001-2005)(2006-2010) (Partners : Schoukens (VUB), Van Brussel (KUL), Van Cauwenberghe (UG), Gevers (UCL), Hanus (ULB), Remy (Mons), Brown (Cincinnatti), Flower (Warwick), Isermann (Darmstadt), Ljung (Linköping), Vanden Bos (Delft), Verbruggen (Delft), Kailath (Stanford))

FWO Research Community : Advanced Numerical Methods for Mathematical Modelling (1995-2000) (2001-2005) Dirk Roose, Adhemar Bultheel, Computer Science, K.U.Leuven, Guido Vandenberghe UG, Pieter De Groen VUB, Annie Cuyt UIA, Paul Van Dooren UCL, Beauwens ULB, Spence BATH UK, Golub STANFORD)

FWO Research Community: Machine Learning for Data Mining (Manderick (VUB, coordinator), Blockeel (KUL), Naudts (UA), Daelemans Walter, Luc Deraedt,….)

FWO G.0824.09 : Can response to epidermal growth factor receptor antibodies in patients with metastatic colorectal cancer be predicted (2009-2010) (withS. Tejpar, E. Van Cutsem)

FWO G.0871.12N : Neural circuits – Application of system identification tools to neural circuits (2012-2015) (with Emri Yaksi)

cSBO : ENZYMARES : Enzyme prediction toolbox (2021-2025) (HBC.2021.0076)

SBO : The Sound of Music : Innovative research and valorisation of plainchant through digital technology (2020-2023) (S005319N)

EOS G0F6718N : SeLMA : Structured Low-Rank Matrix/Tensor approximation : Numerical optimization-based algorithms and applications (2018-2021)

The Library of Voices – Unlocking the Alamire Foundation’s Music Heritage Resources Collection through Visual and Sound Technology (2018-2021) (IO13218N)

Direct detection and identification of neuro-oncology markers in brain tumours (2019-2023) (FWO TBM T001919N)

EU funding

BIOPATTERN – Computational intelligence for biopattern analysis in support of e-Healthcare (2004-2008) (3E040444)

COST Action BM 1104 Mass Spectrometry Imaging : new tools for healthcare research (2011-2015) (BM1104)

Big data challenges for healthy living and active aging (2017) (EIT Health)

MOOC – Data Analytics in health (2016-2017) (EIT Health)

Back to the roots of data-driven dynamical system identification (2021-2025) (ERC Adv)

MIDAS : Meaningful integration of data, analytics and services (2016-2000) (H2020-SC1-2016-2017 Grant Agreement no. 727721)

BIOPTRAIN : Bioinformatics and optimization training (2005-2009) (EST-CT-2004-7597)

EC-EDITH : European doctorate on information technology (2005-2007) (MEST-CT-2004-504195)

QUPRODIS : Quantum properties of distributed systems (2003-2005) (IST-2001-38877)

Agentschap voor Innovatie door Wetenschap en Technologie (IWT)

McKnow : Automated and user-oriented methods and algorithms for knowledge management (2001-2005)

SQUAD : Molecular and computational biology of quorum signaling in bacterial pathogens : Salmonella (2002-2007)

SILICOS : Research towards an in silico drug discovery platform (virtual screening factory) based on specrophore technology (2005-2007)

Flight Test Easy+ : Optimised design engineering process for aerospace structures (2005-2007)

BioScop-IT : Bioinformatics service project (2005-2008) (IWT/040571)

Endometriosis Test : Development of a noninvasive diagnostic test for endometriosis (2007-2009)

IOTA 3 Ovarian tumour characterisation – Multicentre prospective assessment study on the preoperative characterisation of ovarian tumours based on predictive computer models (2008-2012) (070706/IWT TBM)

DSquare – D Square data mining (2008-2011) (IWT/080222/O&O BDM)

CLIMAQs – Climate impact and air quality modelling for policy support (2008-2011) (IWT-SBO-080019)

LOGIC – Insulin algorithm – The single-centre and multi-centre clinical validation of an algorithm to control blood glucose levels in critically ill patients (2011-2015) (IWT-TBM)

Rectal cancer – Response prediction of rectal cancer based on molecular and functional characteristics of the tumor. (2011-2014) (IWT-TBM-Haustermans)

Novel strategies for organ sparing in patients with complete response to radiochemotherapy in locally advanced rectal cancer (20142017)

Endometrial cancer diagnosis based on predictive computer models within an international Endometrial Tumour Analysys (IETA) collaboration (2013-2017)

Kankerplan

Patient-tailored treatment for patients with rectal cancer (2009-2010)

Prostaatcarcinoom – Implementation of functional imaging and molecular diagnostics for patient tailored treatment of prostate cancer (2009-2010)

Determining genetic markers for platinumsensitivity in ovarian cancer (2010-2011)

Prostate cancer – Towards the identification of the true high-risk prostate cancer patient (2012-2015)

iMinds

IBBT 2010 – IBBT Future Health Department (2010) (IBBT-2010-ISBO)

IBBT 2011 – IBBT Future Health Department (2011) (IBBT-2011-ISBO)

IBBT 2012 – IBBT Future Health Department (2012) (IBBT-2012-ISBO)

iMinds 2013 – Future Health Department – SBO – Strategisch Onderzoek (2013) (iMinds 2013 – ISBO)
iMinds Interdisciplinair Cooperatief Onderzoek (2016)

MSIpad : Mass spectrometry imaging for pathology and drug discovery (2015-2016) (iMinds-ICON)

MyHealthData Scenarios for a patient’s use of healthcare data (2015-2016) (iMinds-ICON)

Data-driven modeling techniques for indoor CO2 estimation (2018)

iMinds HQ Strategisch basis onderzoek (2015, 2014, 2010) (iMinds SBO dotatie)

Belgian Science Policy Office (Belspo)

Modeling, identification, simulation and control of complex systems (1997-2001)

Dynamical systems and control : computation, identification and modeling (2002-2006)

DYSCO : Dynamical systems, control and optimization (2007-2012) (2012-2017) (P7/19)

BIOMAGNET : Bioinformatics and Modeling : from Genomes to Networks (2007-2013) (P6/25)

Vlaamse Regering

Artificiële intelligentie (2019-2022) (VR 2019 2203 DOC.0318/1QUATER) (Impuls AI – impulsprogramma)

Consultancy

Capsugel – Modelling and control of the dipping section of a capsule manufacturing process (2018)

IOTA-ADNEX : Integration and validation of the IOTA ADNEX model in GE ultrasound equipment (2018-2020)

Implementatie van een niet-lineair Model Predictive Control Sturingssysteem voor het Demerbekken (2014-2016)

Other

TRAFFIC : Sustainability effects of traffic management systems (2001-2005) (CP001/401 3E010712)

KOTK Next-generation multiplex pathology : Enabling precision medicine by improving cancer diagnostics and biomarker identification (2020-2024)

GENAGRID : Bioinformatic servies for genetic assocation studies using high-performnce grid computation (2008-2012)

City of Things : Slimme IoT technologie gekopped aan slimme zorgverlening voor levensloopbestendig wonen (2018-2020) (COT.2018.018)

Data highway to precision medicine (2019-2021) (HBC.2019.2209)

PASCALe : Platform voor het Annoteren en Structureren van Content en Analyse van het Leergedrag (2017-2018)
TUNECLIX (2018-2020) (HBC;2018.0405)

Model predictieve controle gekoppeld met bewegende horizon schatting : stabiliteit, schaalbaarheid, robustheid en performantie (2009-2010) (3E090841)

Monsanto : Softwarelicentie INCLUSive Software (2007)

TML (2006)

PROMETA : A proteomics center as part of the interfaculty center for proteomics and metabolomics (2004-2010)