Reaction-diffusion modeling for neurobiology workshop at CNS 2017 (July 20)

Abstract

Methods developed for Computational Systems Biology are finding increasing use in Computational Neuroscience to understand the details of molecular cascades that influence neuron electrical activity -- many and likely most voltage-sensitive ion channels and ligand sensitive channels (synapses) are modulated by such cascades. Additionally, examination of metabolomics requires consideration of the role of ATP in the functioning of cells for applications to a variety of brain diseases. This workshop on reaction-diffusion modeling will provide an introduction to the different types research questions being addressed using reaction-diffusion modeling. It will also identify the various technical approaches and bottlenecks encountered in addressing reaction-diffusion problems -- stochastic vs deterministic simulation, simulation at 1D, 2D and 3D, tetrahedra vs cubic arrays, difficulties of coupling to membrane mechanisms and challenges of parallelization.

Location and Registration

This workshop is part of the CNS 2017 conference in Antwerp, Belgium. We will meet in room K.203 at the Universiteit Antwerpen.

You must register for CNS 2017 workshops to attend.

Invited Speakers

• Ekaterina Brocke (KTH Royal Institute of Technology)
  • Numerical discretization schemes for co-simulation of coupled electrical - chemical systems
• Joanna (Asia) Jedrzejewska-Szmek (George Mason)
  
  • NeuroRD as an approach for large scale modeling of neuronal signaling pathways.
• Bill Kath (Northwestern)
  • Control of switching in complex reaction networks
• Davide Lillo (Marseille)
  
  • Slow variables of epileptiform activity: metabolic candidates and computational properties.
• Marja-Leena Linne (Tampere University of Technology)
  • Model order reduction techniques with applications to describing reaction kinetics in neuronal and glial cells.
• Jim Schwaber (Thomas Jefferson)
  
  • Multiscale models of schizophrenia: gene networks to information in neuronal network
• William W Lytton (SUNY Downstate)
  • Reaction-diffusion -- foundations of multiscale modeling for the nervous system
• Robert McDougal (Yale)
  • Using NEURON to incorporate reaction-diffusion into cellular and network models.
• Erik De Schutter (OIST)
  • Mesh based neuron modeling using STEPS: fully integrated stochastic molecular and electrophysiological simulation at 3D
• Nicolos Doyon (Laval)
  • Using Finite Elements to model Electro-Diffusion in neural structures.

Schedule

09:00 - 09:10   Welcoming remarks, discussion on what problems inspire us to consider the
                role of reaction-diffusion and what challenges we have faced
09:10 - 09:50   Reaction-diffusion -- foundations of multiscale modeling for the nervous 
                system (William W Lytton)
09:50 - 10:30   Multiscale models of schizophrenia: gene networks to information in neuronal 
                network (Jim Schwaber)
10:30 - 11:00   Coffee break
11:00 - 11:40   Model order reduction techniques with applications to describing reaction 
                kinetics in neuronal and glial cells (Marja-Leena Linne)
11:40 - 12:20   Numerical discretization schemes for co-simulation of coupled electrical -
                chemical systems (Ekaterina Brocke)
12:20 - 12:30   Discussion: What do we wish our tools could provide?
12:30 - 14:00   Lunch break
14:00 - 14:40   Control of switching in complex reaction networks (Bill Kath)
14:40 - 15:20   Slow variables of epileptiform activity: metabolic candidates and computational 
                properties. (Davide Lillo)
15:20 - 15:50   Coffee break
15:50 - 16:30   Using Finite Elements to model Electro-Diffusion in neural structures
                (Nicolas Doyon)
16:30 - 17:00   NeuroRD as an approach for large scale modeling of neuronal signaling pathways. 
                (Joanna Jedrzejewska-Szmek)
17:00 - 17:30   Mesh based neuron modeling using STEPS: fully integrated stochastic molecular 
                and electrophysiological simulation at 3D (Erik De Schutter)
17:30 - 18:00   Using NEURON to incorporate reaction-diffusion into cellular and network models. 
                (Robert A McDougal)