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Patrick Favre, PhD

Professional activities

2021-Actual Laboratory manager 50%: University of Fribourg. Ecology and Evolution Unit.
Ecological Genomics. Christian Parisod Group

 

2020-Actual Laboratory technician 50%: University of Fribourg. Ecology and Evolution Unit.
Adaptation Genomics. Thomas Flatt Group

 

2018-2021 Laboratory technician 50%: University of Fribourg. Ecology and Evolution Unit.
Plant invasions and Biological Control. Heinz Müller-Schärer Group

 

2019 (6 months) Senior researcher in Bioinformatics. University of Fribourg. Laurent Falquet group. https://shiny.bioinformatics.unibe.ch/apps/taser/

 

2015-2018

Post-doctoral position at the CHUV | Lausanne university hospital. MicroScapesX project for SystemsX.ch: design and systems biology and functional microbial landscapes. Skin microbial ecology and systems modeling: microbial community development in human burn-wound.

 

2013-2014

Bioinformatics research project: Identification of genes in plants involved in mycorrhizal symbiosis. University of Fribourg / SIB-ISB Lausanne. 

 

2008 - 2012
Postdoctoral research. Plant growth in a changing environment, SystemsX.ch, University of Fribourg.


2007 – 2008
Postdoctoral research. Modelling of the implementation of the architecture of the rosebush by a "virtual plant" approach, INRA-Angers (France).


2004 - 2006
Supply teacher in High Schools (biology, physique, mathematics, data processing), Département de l'Instruction Publique de Genève.


2006
Teaching in biology at the School for University Preparation and Support (EPSU).


2000 - 2006
Data processing technology adviser. Piotton.com Enterprise – Barbara Erskine Network.


1996 - 2003
Assistant of professors at the University of Geneva, Student courses and Scientific researches.
Webdesigner  and webmaster at the University of Geneva, Department of Plant Biology, Laboratory plant biochemistry and physiology, Physiomatics unit.


1993 - 1997
Production and making of a animated short film «Symbionte».

Nationality: Swiss

 

 3 children

 
Languages    French: mother tongue
                      English: fluent

 

Researchgate profile

Nationality: Swiss

Married, 3 children

Languages French: mother tongue English: fluent

Academic studies

2004
Ph.D es sciences in Biology. University of Geneva. Director of the thesis Prof. C. Penel and Prof. R. Degli Agosti. “Action potentials and bioelectrogenesis in Arabidopsis thaliana (L.) and other plants.”


1997
University Diploma in Plant Physiology. “Measurement and characterization of the plants biopotentials by means of analyses and computerized acquisitions”. University of Geneva.


1995    
Bachelor's degree in Biology. University of Geneva.


1991
Baccalauréat (A-level) in Mathematics and biological Sciences. Périgueux (France).

Competencies

Laboratory skills
    Organic and inorganic analysis in plant and soil.
    Laser Confocal Microscopy, stack, sample staining, 3D reconstruction (MorphoGraphX). Sample fixation for transmission  electronic microscopy.
    Usual lab activities


Programming
    2D and 3D Modelling: GroImp, Matlab, Vlab, L-Studio.
    Data/Image processing: Matlab, Python-aml.
    Data analysis: MS Visual Basic, R cran, Bash, C-shell, Python.
    Web: R shiny, HTML, PHP, Flash Macromedia, Adobe GoLive, cgi code, applet Java.
    CAD: Autodesk 3D Studio, Adobe Premiere/Photoshop.


Office computer system
    MS Windows: Word, Excel, Power Point, Access.
    LibreOffice: Writer, Calc, Impress.


Teaching    
    Particular courses, seminars, schools.

Training

2013
Course in Organismal Biology, introduction to Bioinformatics, 15, 22, 29 May 4-5 June, Neuchâtel.


2012
SPSW/SystemsX Summer School, Modelling Development in Plant Sciences, June 21-23 Muerren.


2010
SystemsX.ch Summer School in Computational Biology, August 17-24 Split (Croatia).


2009
Course on Comparative Biomechanics, June 8th-10th Bern , Dr. Jacques Dumais.


2009
SystemsX.ch Course on Plant Modeling, February 9-12 Bern, Dr. Richard Smith.

2013

Course in Organismal Biology, introduction to Bioinformatics, 15, 22, 29 May 4-5 June, Neuchâtel.

2012

SPSW/SystemsX Summer School, Modelling Development in Plant Sciences, June 21-23 Muerren.

2010

SystemsX.ch Summer School in Computational Biology, August 17-24 Split (Croatia).

2009

Course on Comparative Biomechanics, June 8th-10th Bern , Dr. Jacques Dumais.

2009

SystemsX.ch Course on Plant Modeling, February 9-12 Bern, Dr. Richard Smit2013
Course in Organismal Biology, introduction to Bioinformatics, 15, 22, 29 May 4-5 June, Neuchâtel.
2012
SPSW/SystemsX Summer School, Modelling Development in Plant Sciences, June 21-23 Muerren.
2010
SystemsX.ch Summer School in Computational Biology, August 17-24 Split (Croatia).
2009
Course on Comparative Biomechanics, June 8th-10th Bern , Dr. Jacques Dumais.
2009
SystemsX.ch Course on Plant Modeling, February 9-12 Bern, Dr. Richard Smith.
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