[BBC] BioSB Course - Modelling & optimization for bioinformatics and systems biology, 9-13 December 2019, Wageningen

[Femke Francissen]

*BioSB Course -  Modelling & optimization for bioinformatics and systems
biology*

*Website:              *Modelling & optimization
<https://www.biosb.nl/archive-courses/modeling-and-optimization-2019/> for
bioinformatics and systems biology
*Date:                    *9-13 December 2019
*Location:    *         Wageningen University & Research, the Netherlands
*Coordinators:  *   Jaap Molenaar, WUR
*Registration: *      Register now via the website!
<https://www.biosb.nl/archive-courses/modeling-and-optimization-2019/>

*Course overview*

In this course the participants learn how to describe the dynamic behavior
of biological systems, and how to use optimization techniques to solve a
variety of problems in bioinformatics and systems biology. Concepts of
modelling in terms of differential equations are introduced via a great
variety of case studies taken from diverse practices. This course also
provides you with the main ideas underlying classical optimization,
such as *steepest
descent methods, Levenberg-Marquardt approach, genetic algorithms, global
and local search methods*,  and to get you acquainted with the optimization
techniques that are nowadays available and widely used. Examples of
optimization problems in life sciences will be presented and discussed.

The course is a mixture of theory sessions and computer practicals. During
the practicals we will work with the easy-to-use package *PPlane* for
phaseplane analysis and most of the time with *Matlab*. Participants not
acquainted with Matlab will get the opportunity to follow an introduction
module. The course offers a math refresher to help those participants who
are not (yet) involved in modelling on a daily basis. The course is
completed with assignments in the form of practical exercises as homework
afterwards.
*Teachers:*

   - Aalt-Jan van Dijk, Wageningen University & Research
   - Hans Stigter, Wageningen University & Research
   - Natal van Riel, TU Eindhoven
   - Aljoscha Wahl, TU Delft

*Target audience*
PhDs and Postdocs interested in the fundamental modeling concepts and
techniques of Systems Biology and Optimization.  Basic knowledge of
mathematics is assumed,  Programming experience and knowledge of Matlab is
preferable but not required.

*Learning objectives*

The students will be provided with a theoretical basis, a variety of
methods and a computational hands-on experience to handle differential
equation modelling and numerical optimization.

In the course the students will learn:

   - To understand the common ground and the differences for applications
   of dynamic modeling in metabolic, regulatory, signaling, population and
   multi-scale biological processes;
   - How to set-up a dynamic model to represent biological networks using
   different interaction mechanisms;
   - To implement, simulate and analyze dynamic network models;
   - To apply different types of numerical optimization methods;
   - The combination of dynamic modeling and optimization to estimate model
   parameters and design experiments;
   - Design of experiments to minimize the uncertainty in parameter
   estimates.

*Course credits*
The study load of this course is 3 ECTS credits. Participants will get a
certificate after successfully completing this course.

*Registration fee*
The registration fees for this 5-day course are: PhD student: 400 euro
(excl. VAT), Academic researcher (PI/Postdoc): 600 euro (excl. VAT),
Industry: 900 euros (excl.VAT)
-------------------------

*About the BioSB research school*
BioSB <https://www.biosb.nl/> is the Bioinformatics and Systems Biology
community in the Netherlands. We are committed to train the next generation
of computational life scientists. Our challenging and inspiring education
programme covers essential topics in bioinformatics and systems biology,
taught by teams of experts.

*Upcoming BioSB courses*
Registration is open for the following BioSB courses:

   - Constraint based modelling
   <https://www.biosb.nl/archive-courses/constraint-based-modelling-introduction-and-advanced-topics-2019/>
-
   25-29 November 2019, Leiden, the Netherlands

For more information you can visit our website <http://www.biosb.nl/> or
contact us via: education at biosb.nl
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