User:Alexis Courbet

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Research interests

Alexis Courbet
  • Cellular/molecular engineering
  • Computational protein design
  • Self-assembling protein nanomaterials
  • Biocomputing & Biosensing
  • Synthetic biological circuits
  • CAD & computational design for synthetic biology
  • Autonomous & programmable biosystems
  • Protocells & minimal systems
  • Microfluidics
  • Biomolecular prosthetics, diagnostics & theranostics
  • Medical sciences, translational medicine
  • Multidisciplinary science

I am interested in the engineering of complex biological systems through synthetic biology to achieve programmable information and energy processing.

During my PhD I engineered bacterial cells and protocellular structures as autonomous and programmable biosensors-biocomputers capable of multiplexed biomolecular signal integration and processing. I developed CAD tools, microfluidic and molecular biology strategies to automate the implementation of logic circuits in biological substrate (i.e. synthetic genes circuits and biochemical circuits). I established concepts, systematic methods, computational tools and biological standards to:

  • 1. Engineer next-generation diagnostics. I engineered autonomous and programmable biosensors integrating multiplexed pathological biomarker detection and complex biological signal processing as intelligent diagnostic devices.
  • 2. Engineer novel biocomputing devices that solve complex problems and process/interface biological information at the microscale. I developed microfluidic and computer assisted methodologies to program these synthetic biosystems from the bottum-up (e.g. protocells).

I recently joined the Baker laboratory and am now focusing on computational protein design to develop novel bio-electronic interfaceable, ultra low power and self assembling nanoscale biocomputers.

I believe that collaboration between scientists and promotion of interdisciplinarity is the key to understand and engineer biology.

Contact Info

Washington Research Foundation Innovation Postdoctoral Fellow
University of Washington, Seattle, USA

Formerly at:

PhD Student
University of Montpellier, France

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  • 2012-2015, PhD at The National Center for Scientific Research (CNRS)&Bio-Rad/Stanford University
  • 2012, MS in Molecular and Cellular Biophysics, University of Montpellier
  • 2011-2015, Residency in Clinical Toxicology, Pharmaceutical innovation and Biomedical Research
  • 2011, MS in Cellular and Molecular Biology, University Paris Sud 11
  • 2010, BS, University of Paris Sud 11
  • 2010, BMSc, University of Paris Sud 11


Detection of pathological biomarkers in human clinical samples via amplifying genetic switches and logic gates
Science Translational Medicine, 2015 May 27;7(289):289ra83
Alexis Courbet, Drew Endy, Eric Renard, Franck Molina, and Jérôme Bonnet Abstract PDF
Supplementary Materials

Computing with Synthetic Protocells
Acta Biotheor., 2015 May 13;
Alexis Courbet, Patrick Amar, and Franck Molina Abstract PDF

Engineering next generation diagnostics through synthetic biology
University of Montpellier, Medical Thesis, 2015 July 2;
Alexis Courbet PDF

University of Montpellier, PhD Thesis, 2015 December;
Alexis Courbet PDF

Bringing next‐generation diagnostics to the clinic through synthetic biology
EMBO Molecular Medicine 2016 July 11; DOI: 10.15252/emmm.201606541
Alexis Courbet, Eric Renard, and Franck Molina Abstract PDF

Computer-aided biochemical programming of synthetic microreactors as diagnostic devices
Molecular Systems Biology (2018) 14, e7845; DOI 10.15252/msb.20177845
Alexis Courbet, Patrick Amar, François Fages, Eric Renard, Franck Molina Full Text PDF

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