(:homeheader name="Matthias Függer" position="Senior Researcher" alias="matthias.fuegger" office="2S60" photo="":)

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Research

    I work on systematic engineering of robust microbial systems with applications in
    bioproduction, diagnosis, and medical treatment. Towards this goal I use methods from experiments, modeling,
    numerical simulation, AI, and mathematical analysis.
    I am also interested in:

• How to design robust circuits.
• How to compute in dynamic networks.
• How to design algorithms implemented in silicon and at cell-level.<!--h2> Looking for an internship?

Bacterial Consensus (starting this year).

Contact me per mail if you are interested.

       If you are interested in joining research as an Intern, PhD, or PostDoc, please contact me.
       For open position please consult the Cellular Computing Group site.

Projects

• PROCEED [2023, running]. Concept grant (AAP Preuve de Concept de l’OI BioProbe)

Collaboration between LUMIN (ENS Paris-Saclay) and LMF (ENS Paris-Saclay).

• DREAMY [2021-2025, running]. Distributed Algorithms for Microbiological Systems (ANR-funded research project)

Please check the DREAMY webpage for details.

• HicDiesMeus [2017-2022]. Working group on Highly Constrained Discrete Agents for Modeling Natural Systems (funded by DigiCosme).
• BACON [2021]. Bacterial Consensus. (funded by INS2I CNRS Émergence)
• ETSHI [2020-2021]. Efficient Test Strategies for SARS-CoV-2 in Healthcare Institutions. (funded by Université Paris-Saclay/ENS Paris-Saclay/CARE)

The project is a collaboration between LISN (Université Paris-Saclay), LMF (Université Paris-Saclay/ENS Paris-Saclay), Micalis (INRAe), and the Algorithms and Complexity Group (Max Planck Institut für Informatik).

• ABIDE [2020] . Algorithms in Birth-Death Systems (funded by INS2I CNRS Émergence)
• COMBACT [2019-2020]. Digital Communication Models for Bacteria (funded by RFSI Ile de France grant)

Funding for a PostDoc and M2 position to study bacterial communication in E. coli.

• DEPEC MODE [2019]. Deriving Phage Communication Models. Projets Emergents 2019 du Departement STIC.
  Funding for experiments for a phage communication model for E. coli and M13 phages.
• DICIMUS [2018-2019]. Institut Farman project on modeling of bacterial interactions using techniques from distributed computing theory and VLSI design.
  Focus of the project is to obtain experimental data to verify and calibrate theoretical models.
• SIC [2013-2018]. Austrian FWF project on Self-stabilizing Byzantine Fault-Tolerant Distributed Algorithms for Integrated Circuits.
  Aim of the project was to study distributed algorithms that can be efficiently implemented directly in hardware, in order to provide robust services to other hardware components or the application layer. Examples are robust clock synchronization, clock frequency adaptation in presence of voltage droops, communication infrastructure on a chip, etc. Please see the for details.

Teaching, Thesis, and Internships

• Winter 2024: Computational Bioengineering. With Thomas Nowak.
• Winter 2024: Initiation a la recherche (Distributed synthetic microbiology, 2h) at ENS Paris-Saclay. With Thomas Nowak.

Thesis and Internships: If you are interested in writing a Bachelor/Master/PhD thesis or making an internship in one of the above research topics write me a short mail including your current status and topic of interest.

Internship projects for TU Wien Bachelor with Honors students: please see for further information.

Teaching in previous years:

• Winter 2022: Initiation a la recherche (Distributed synthetic microbiology, 2h) at ENS Paris-Saclay. With Thomas Nowak.
• Winter 2021: Initiation a la recherche (Distributed synthetic microbiology, 2h) at ENS Paris-Saclay.
• Winter 2021: Natural algorithms. With Thomas Nowak.
• Winter 2021: Metastability-containing Synchronization Circuits. With Cristoph Lenzen, Danny Dolev, Moti Medina, Ian W. Jones, and Johannes Bund. At CISPA, Germany.
  * Summer 2021: Clock Synchronization and Adversarial Fault Tolerance (MSc level, remote lecture, 4h) at MPI-INF together with Christoph Lenzen and Danny Dolev.
• Winter 2020: Initiation a la recherche (Distributed synthetic microbiology, 2h) at ENS Paris-Saclay.
• Winter 2020: How To Clock Your Computer (MSc level, remote lecture, 4h) at MPI-INF together with Christoph Lenzen, Moti Medina, Andreas Steininger, Danny Dolev, Ian Jones, and Milos Krstic.
• Winter 2019: Initiation a la recherche (Distributed synthetic microbiology, 2h) at ENS Paris-Saclay.
• Winter 2019: Guest lecture at MPI-INF on Distributed Computing with Bacteria.
• Winter 2018: Initiation a la recherche (Distributed Biology, 2h) at ENS Paris-Saclay.
• Winter 2018: Guest lecture at MPI-INF on Link Reversal Algorithms.
• Winter 2017: Initiation a la recherche (Opinion Dynamics, 2h) at ENS Paris-Saclay.
• Summer 2015: Beyond Classical Circuit Design at MPI-INF.<!--

Recent

• CELLS: Workshop on Computing among Cells. October 28, 2022 (hybrid).-->

Positions

• since 01/2024: Co-PI of the Cellular Computing Group.
• since 01/2022: Head of the Distributed Computing Group at LMF.
• since 10/2016: CNRS Researcher at LMF, ENS Paris-Saclay.
• 2016-2024: Member of the Inria Team MEXICO.
• 2015-09/2016: Postdoc at Department 1: Algorithms and Complexity, Max-Planck-Institut für Informatik, with Christoph Lenzen.
• 2014: Postdoc at LIX, Ecole polytechnique, with Bernadette Charron-Bost.
• 2006-2014: Research Assistant and then Assistant Professor at the ECS Group, Department of Computer Engineering, TU Wien, with Ulrich Schmid.

Thesis

Habilitation thesis at Université Paris-Saclay.

    [[habil/index.html|Computing at the border of abstractions: the power of timed, non-binary,
    distributed circuits.]] Jan 6, 2022.