[BBC] BioSB Course Discovering Systems Biology Principles, 23-27 November 2015, Amsterdam

[Femke Francissen]

*BioSB Course Discovering Systems Biology Principles, 23-27 November 2015,
Amsterdam*

*Website:*
http://biosb.nl/education/course-portfolio-2/course-discovering-systems-biology-principles/

*Coordinators:* Frank Bruggeman (VU), Celia van Gelder (BioSB,
celia.van.gelder at biosb.nl)
*Registration: *
http://biosb.nl/education/course-portfolio-2/course-discovering-systems-biology-principles/enrollment-dicovering-systems-biology-principles-course/
.

*Please note that this course is free of charge for PhDs who are or will
become a member of the  BioSB research school, and with a reduced fee for
other researchers who are or will  become a member of BioSB. *More
information about the BioSB membership can be found here:
http://biosb.nl/about/members/biosb-membership-information/ .

*Course description*
A large part of systems biology is concerned with studying how the
molecular networks inside living cells function. What they do. How their
molecular interactions, including feedback circuitry, give rise to cellular
properties, such as sensing, adaptation, division and death, that transcend
those of single molecules. This includes figuring out how gene mutations,
causing changes in proteins, cause networks, and their cellular hosts, to
malfunction. In order to do this, systems biology focusses on the dynamics
of molecular networks, using quantitative experiments and mathematical
modeling. Mathematical models help systems biologists to figure out: i. how
molecular properties relate to the functional, systemic properties of
molecular networks, and ii. how molecular networks assist in the survival
and functioning of cells.
This 1-week course serves as an introduction to mathematical modeling as it
is used in systems biology.

*Target audience*
This course does not require any introductory reading or courses, it should
be accessible to students with diverse backgrounds.

*Course programme*
We start from physical and chemical principles of molecules, cells and
reactions. Next, you will learn how you can relate the changes in the
concentrations of molecules over time to the activity of reactions and the
underlying molecular properties. You will be introduced to enzyme kinetics
and the dynamics of small enzyme systems, in metabolism and signal
transduction. We also briefly deal with models of genetic circuits. We will
illustrate a number of unexpected, functional properties of molecular
networks that can be studied with simple mathematical models. You will make
and analyse models yourself, on paper and with software. We will close the
week with a short overview of some more advanced topics, to introduce you
to approaches and concepts that you will often hear about in systems
biology.
The course material concerns a syllabus (with exercises and answers),
handouts, and computer exercises. At the end of this 1-week course, you
will have a good understanding how mathematical models are made, what
biology they require and how you can use them in systems-biology research.

*Course schedule*

*Monday, Nov 23*
09:30-10:30 Diffusion
11:00-12:30 Diffusion
13:30-15:00 Mass balances and kinetics
15:30-17:00 Mass balances and kinetics

*Tuesday, Nov 24*
09:30-10:30 Mathematica or JWS online, basics
11:00-12:30 Mathematica or JWS online, basics
13:30-15:00 Simulating differential equation models
15:30-17:00 Simulating differential equation models

*Wednesday, Nov 25*
09:30-10:30 Enzyme kinetics
11:00-12:30 Enzyme kinetics
13:30-15:00 Rate characteristics
15:30-17:00 Supply demand theory and ultrasensitivity

*Thursday, Nov 26*
09:30-12:30 Cool systems: kinetic proofreading, TF-DNA search, robustness,
fold-change detection,
optimal gene expression
13:30-17:00 Making models in JWS online or Mathematica

*Friday, Nov 27*
09:30-10:30 Stoichiometric analysis, N, K, L
11:00-12:30 Flux balance analysis
13:30-15:00 Stability analysis, phase-plane analysis
15:30-17:00 Bistability and oscillations with JWS Online or Mathematica

*BioSB Education Programme*
This course is part of the Education Programme of BioSB, the Netherlands
Bioinformatics and Systems Biology Research School, which offers  training
and education in bioinformatics and systems biology. More information about
BioSB can be found at www.biosb.nl or via education at biosb.nl.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://maillist.psb.ugent.be/pipermail/bbclist/attachments/20151030/def88de6/attachment.html>