User:Alexis Courbet: Difference between revisions
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==Research interests== | |||
[[Image:Alexis_Courbet.jpg|thumb|right|Alexis Courbet]] | |||
* Cellular/molecular engineering | |||
* 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 automatize the implementation of logic circuits in biological substrate (i.e. synthetic genes circuits and biochemical circuits). I developped 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 am now focusing on rational protein design for its potential to develop novel versatile, bio-electronic interfaceable, ultra low power and self assembling nanoscale computers. | |||
I believe that collaboration between scientists and promotion of interdisciplinarity is the key to understand and engineer biology. | |||
==Contact Info== | ==Contact Info== | ||
*Alexis Courbet | *Alexis Courbet | ||
*Sys2diag laboratory, CNRS | *Sys2diag laboratory, CNRS | ||
''Complex | ''Complex biological systems modelling and engineering for diagnosis'' | ||
*Montpellier, France | *Montpellier, France | ||
*[[Special:Emailuser/Alexis Courbet|Email me through OpenWetWare]] | *[[Special:Emailuser/Alexis Courbet|Email me through OpenWetWare]] | ||
==Education== | ==Education== | ||
<!--Include info about your educational background--> | <!--Include info about your educational background--> | ||
* 2012-2015, PhD at The National Center for Scientific Research (CNRS) & Bio-Rad | * 2012-2015, PhD at The National Center for Scientific Research (CNRS)&Bio-Rad/Stanford University | ||
* 2012, MS in Molecular and Cellular Biophysics, | * 2012, MS in Molecular and Cellular Biophysics, University of Montpellier | ||
* 2011-2015, Residency in Clinical Toxicology, Pharmaceutical innovation and Research | * 2011-2015, Residency in Clinical Toxicology, Pharmaceutical innovation and Biomedical Research | ||
* 2011, MS in Cellular and Molecular Biology, University Paris Sud 11 | * 2011, MS in Cellular and Molecular Biology, University Paris Sud 11 | ||
* 2010, BS, University Paris Sud 11 | * 2010, BS, University of Paris Sud 11 | ||
* 2010, BMSc, University Paris Sud 11 | * 2010, BMSc, University of Paris Sud 11 | ||
==Publications== | ==Publications== | ||
| Line 46: | Line 55: | ||
'''Alexis Courbet''', Patrick Amar, and Franck Molina | '''Alexis Courbet''', Patrick Amar, and Franck Molina | ||
[http://www.ncbi.nlm.nih.gov.gate1.inist.fr/pubmed/25969126?report=abstract Abstract] [[Media:Courbet_Acta.pdf|PDF]]<br> | [http://www.ncbi.nlm.nih.gov.gate1.inist.fr/pubmed/25969126?report=abstract Abstract] [[Media:Courbet_Acta.pdf|PDF]]<br> | ||
'''Engineering next generation diagnostics through synthetic biology'''<br> | |||
''University of Montpellier, Medical Thesis'', 2015 July 2;<br> | |||
'''Alexis Courbet''' | |||
[[Media:Courbet_Thesis.pdf|PDF]]<br> | |||
==Useful links== | ==Useful links== | ||
*[[ | *[http://diybio.org/ DIYbio] | ||
*[[ | *[http://aeon.co/magazine/ Aeon] | ||
*[http://parts.igem.org/Main_Page?title=Main_Page Registry of biological parts] | |||
*[https://lifeware.inria.fr/biocham/ The Biochemical Abstract Machine BIOCHAM] | |||
*[https://www.lri.fr/~pa/Hsim/ The stochastic automaton HSIM] | |||
*[http://lesswrong.com/ Less Wrong] | |||
Revision as of 12:04, 3 January 2016
Research interests
- Cellular/molecular engineering
- 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 automatize the implementation of logic circuits in biological substrate (i.e. synthetic genes circuits and biochemical circuits). I developped 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 am now focusing on rational protein design for its potential to develop novel versatile, bio-electronic interfaceable, ultra low power and self assembling nanoscale computers.
I believe that collaboration between scientists and promotion of interdisciplinarity is the key to understand and engineer biology.
Contact Info
- Alexis Courbet
- Sys2diag laboratory, CNRS
Complex biological systems modelling and engineering for diagnosis
- Montpellier, France
- Email me through OpenWetWare
Education
- 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
Publications
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
