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Schedule, Notes/Handouts & Videos

Algebraic Methods for Biochemical Reaction Networks (Leipzig, Germany) June 12, 2023 - June 23, 2023

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Jun 12, 2023
Monday
09:00 AM - 10:15 AM
  Reaction Networks: Definition, ODE, Mass-Action Kinetics
Alicia Dickenstein (University of Buenos Aires)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Main Properties and Questions: S-Classes and Invariance, Boundedness, Steady States, Parametrizations, Multistationarity, Stability, Oscillations
Elisenda Feliu (University of Copenhagen)
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:30 PM
  Problem Session
03:30 PM - 04:00 PM
  Coffee Break
04:00 PM - 05:00 PM
  Welcome Activity
Jun 13, 2023
Tuesday
09:00 AM - 10:15 AM
  Polynomials in Several Variables: Algebra, Geometry, Effective Computations
Timo de Wolff (TU Braunschweig)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Invariants and Elimination of Variables, Sparseness
Alicia Dickenstein (University of Buenos Aires)
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:15 PM
  Problem Session
03:15 PM - 03:45 PM
  Coffee Break
03:45 PM - 05:00 PM
  Problem Session
Jun 14, 2023
Wednesday
09:00 AM - 10:15 AM
  Binomial Ideals and Monomial Parametrizations
Alicia Dickenstein (University of Buenos Aires)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Laplacian Matrices, Linear Elimination and Rational Parametrizations
Elisenda Feliu (University of Copenhagen)
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:15 PM
  Problem Session
03:15 PM - 03:45 PM
  Coffee Break
03:45 PM - 05:00 PM
  Problem Session
Jun 15, 2023
Thursday
09:00 AM - 10:15 AM
  Injective Networks
Elisenda Feliu (University of Copenhagen)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Surjectivity and Multistationarity for Networks with Monomial Parametrizations. Basics on Gale Duality and Oriented Matroids
Alicia Dickenstein (University of Buenos Aires)
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:15 PM
  Problem Session
03:15 PM - 03:45 PM
  Coffee Break
03:45 PM - 05:00 PM
  Problem Session
Jun 16, 2023
Friday
09:00 AM - 10:15 AM
  Linear Networks. Complex Balanced Steady States.
Alicia Dickenstein (University of Buenos Aires)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Parameter Regions for Multistationarity: Adhoc Approaches and Automated Approaches
Elisenda Feliu (University of Copenhagen)
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:15 PM
  Assignment of Projects in Groups
03:15 PM - 03:45 PM
  Coffee Break
03:45 PM - 05:00 PM
  Assignment of Projects in Groups
Jun 17, 2023
Saturday
08:00 AM - 10:00 PM
  Optional Hike in Saxonian Switzerland
Jun 19, 2023
Monday
09:00 AM - 10:15 AM
  MESSI Systems
Alicia Dickenstein (University of Buenos Aires)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Nonnegative Polynomials and Polyhedral Geometry
Timo de Wolff (TU Braunschweig)
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:15 PM
  Problem Session
03:15 PM - 03:45 PM
  Coffee Break
03:45 PM - 05:00 PM
  Problem Session
Jun 20, 2023
Tuesday
09:00 AM - 10:15 AM
  Multistationarity via Brouwer Degree
Elisenda Feliu (University of Copenhagen)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Parameter Regions for Multistationarity: Polytope Approach
Alicia Dickenstein (University of Buenos Aires)
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:15 PM
  Problem Session
03:15 PM - 03:45 PM
  Coffee Break
03:45 PM - 05:00 PM
  Problem Session
Jun 21, 2023
Wednesday
09:00 AM - 10:15 AM
  Bistability and Oscillations 1: Basic Definitions. Algebraic Criteria
Elisenda Feliu (University of Copenhagen)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Problem Session
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:15 PM
  Projects in Groups
03:15 PM - 03:45 PM
  Coffee Break
03:45 PM - 05:00 PM
  Projects in Groups
Jun 22, 2023
Thursday
09:00 AM - 10:15 AM
  Model Reduction
Elisenda Feliu (University of Copenhagen)
10:15 AM - 10:45 AM
  Coffee Break
10:45 AM - 12:00 PM
  Discussion
12:00 PM - 02:00 PM
  Lunch
02:00 PM - 03:15 PM
  Projects in Groups
03:15 PM - 03:45 PM
  Coffee Break
03:45 PM - 05:00 PM
  Projects in Groups
Jun 23, 2023
Friday
09:00 AM - 10:25 AM
  Student Presentations
10:25 AM - 10:55 AM
  Coffee Break
10:55 AM - 12:00 PM
  Student Presentations
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