[BBC] BioSB course Integrated Modeling and Optimization (preliminary announcement)
Bosnacki, Dragan
D.Bosnacki at tue.nl
Mon Aug 15 03:25:31 CEST 2022
Dear colleagues,
Also in the new academic year the BioSB research school, Wageningen University & Reserach
and Eindhoven University of Technology will organize the course:
*Integrated Modeling and Optimization*
12-16 December 2022, Wageningen University
Computational modelling is an absolute requisite to gain understanding of
the biological mechanisms underlying patterns observed in experimental
data. However, one could say that modelling is a craftsmanship, that can
only be learned via intense exercising and ‘learning by doing’. In this
course we offer the participants the possibility to learn and exercise the
modeling process and the optimization techniques needed to fit models to
data.
In the course the students will learn:
- to understand the common ground and the differences for applications
of dynamic modeling in metabolic, regulatory, signaling, 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 understand the wide variety of problems in modelling that can be
solved with optimization ·
- to apply different types of numerical optimization methods: global and
local search methods: steepest descent, Levenberg-Marquardt, genetic
algorithms, linear programming.
- the combination of dynamic modeling and optimization to integrate
experimental data in modelling, estimate model parameters and design
experiments.
- to understand how numerical optimization (linear programming) works in
flux balance analysis to simulate metabolic network models.
Lecturers:
· Prof. Natal van Riel, Eindhoven University of Technology (course coordinator)
· Dr. Aalt-Jan van Dijk, Wageningen University & Research
· Prof. Jaap Molenaar, Wageningen University & Research
· Dr. Hans Stigter, Wageningen University & Research
· Dr. Robert Smith, Wageningen University & Research
· Dr. Dragan Bosnacki, Eindhoven University of Technology
Target audience:
The course is aimed at PhD students with a background in bioinformatics, systems biology, computer science or a related field,
and life sciences. Participants from the private sector are also welcome. A working knowledge of mathematics,
especially differential equations, is recommendable, but we will distribute preparation material to be studied by students
missing the required background. Furthermore, at the start we offer a math refresher to help those participants who
are not (yet) involved in modelling on a daily basis.
More about the last year's edition:
https://www.dtls.nl/courses/integrated-modeling-and-optimization/<https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.dtls.nl%2Fcourses%2Fintegrated-modeling-and-optimization%2F&data=05%7C01%7C%7Cdb94a8b4fa6941832f8c08da6bf9c254%7Ccc7df24760ce4a0f9d75704cf60efc64%7C0%7C0%7C637941017718028636%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=lMXj23wm05OtsLJrsGBzhsnIiOwAcawkkagtCNQdSR0%3D&reserved=0>
<image001.jpg><https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.dtls.nl%2Fcourses%2Fintegrated-modeling-and-optimization%2F&data=05%7C01%7C%7Cdb94a8b4fa6941832f8c08da6bf9c254%7Ccc7df24760ce4a0f9d75704cf60efc64%7C0%7C0%7C637941017718028636%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=lMXj23wm05OtsLJrsGBzhsnIiOwAcawkkagtCNQdSR0%3D&reserved=0>
Integrated modeling and optimization - Dutch Techcentre for Life Sciences<https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.dtls.nl%2Fcourses%2Fintegrated-modeling-and-optimization%2F&data=05%7C01%7C%7Cdb94a8b4fa6941832f8c08da6bf9c254%7Ccc7df24760ce4a0f9d75704cf60efc64%7C0%7C0%7C637941017718028636%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=lMXj23wm05OtsLJrsGBzhsnIiOwAcawkkagtCNQdSR0%3D&reserved=0>
Course date 13-17 December 2021, Wageningen Location: The course will be held at: Forum Building (building nr 102), with number B0409. A Biocafe (on Thursday) will be held in “The Spot” in Building Orion (gebouw nummer 103) in the Wageningen…
www.dtls.nl<https://eur02.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.dtls.nl%2F&data=05%7C01%7C%7Cdb94a8b4fa6941832f8c08da6bf9c254%7Ccc7df24760ce4a0f9d75704cf60efc64%7C0%7C0%7C637941017718028636%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=Ul4n9%2FEPUxDdirFMnFK%2BpVxnVSfLrpToyiaWp%2FJG9cI%3D&reserved=0>
More details about the programme and the registration will follow soon.
Please feel free to contact Dragan Bosnacki (D.Bosnacki at tue.nl) for more information.
---------------------
*About BioSB*
The Netherlands Bioinformatics and Systems Biology research school (BioSB)
is the national platform in which the Dutch community of researchers in
bioinformatics and systems biology is organized. BioSB also organizes:
1. fundamental and advanced post-graduate courses
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2. the yearly BioSB conference
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3. hot topics meetings
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The aim of the BioSB research school is to offer PhD students, postdocs and
senior researchers a vibrant environment for their scientific development
as well as education in bioinformatics and systems biology. In addition,
BioSB acts as a parent organization for YoungCB
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the official Regional Student Group (RSG) of the International Society of
Computational Biology (ISCB).
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