Virtual Conference and Hackathon

The time zone is Central European Time (CET).


Monday, March 1st

13:15 - 13:30  Welcome by organizers

Session I - Chair: Jan Hasenauer

13:30 - 14:10  Keynote by Laurence Calzone (Institut Curie, France)
"A stochastic Boolean approach to enhance immunogenic cell death"
14:10 - 14:30  Javiera Cortés-Ríos (Pontifica Universidad Católica de Chile, Chile)
 "Understanding overflow metabolism in E. coli through the inclusion of enzymatic constraints"
14:30 - 14:50  Franz-Georg Wieland (University of Freiburg, Germany)
"Optogenetic cell signaling in plants and using phase-separation – modelling two frontiers in synthetic biology"
14:50 - 15:10  Fabian Froehlich (Harvard Medical School, United States)
"Causal Deconvolution of a Thermodynamic Model of MAPK signaling explains Adaptive and Genetic Resistance to Targeted Drugs in BRAF-mutant Cancers"

15:10 - 15:40  Coffee break on gather.town (map)

Session II - Chair: Jan Hasenauer

15:40 - 16:20  Keynote by Christoph Zechner (CSBD/MPI-CBG, Germany)
“Stochastic biological systems in compartmentalized environments”
16:20 - 16:40  Sebastian Persson (University of Gothenburg, Sweden)
"Single-cell dynamic modelling of nutrient signalling in yeast"
16:40 - 17:00  Oleksii Rukhlenko (University College Dublin, Ireland)
"Periodic propagating activation waves coordinate Rho GTPase network dynamics at the leading and trailing edges during cell migration"
17:00 - 17:20  Cemal Erdem (Clemson University, United States)
"Towards integrative mechanistic models of mammalian cell responses to extracellular perturbations: growth factors, hormones, and cytokines"

20:00 - open end  Social get-together - pub quiz on gather.town


Tuesday, March 2nd

9:00 - 12:00    Hackathon

Session III - Chair: Dagmar Waltemath

13:30 - 14:10  Keynote by Henning Hermjakob (EMBL-EBI, UK)
"Reproducibility in Systems Biology Modelling — Sometimes"

14:10 - 16:00  Poster Session I on gather.town in room "Poster 1" (map)
Abstracts (even numbers)

16:00 - 16:20  Coffee break on gather.town (map)

Session IV - Chair: Marc Birtwistle

16:20 - 17:00  Keynote by Jonathan Karr (School of Medicine at Mount Sinai, United States)
 "Novel technologies for data-intensive mechanistic models of whole cells"
17:00 - 17:20  Daniel Weindl (Helmholtz Zentrum München, Germany)
"PEtab – Interoperable Specification of Parameter Estimation Problems in Systems Biology"
17:20 - 17:40  Paul Stapor (Helmholtz Zentrum München, Germany)
"Benchmarking of numerical integration methods for ODE models of biological systems"
17:40 - 18:00  Stefano Camborda La Cruz (IPK, Germany)
"CobraMod: A pathway‑centric curation tool for constraint‑based metabolic models"

Wednesday, March 3rd

9:00 - 12:00    Hackathon

Session V - Chair: Jan Hasenauer

13:30 - 14:10  Keynote by Mats Jirstrand (Fraunhofer-Chalmers Research Centre, Sweden)
"Nonlinear Mixed Effects Modeling for Quantifying Variability and Uncertainty in Systems Medicine"                                                             
14:10 - 16:00  Poster Session II on gather.town in room "Poster 2" (map)
Abstracts (odd numbers)

16:00 - 16:20  Coffee break on gather.town (map)

Session VI - Chair: Daniel Weindl

16:20 - 17:00  Keynote by Ursula Klingmüller (DKFZ, Germany)
  "Regulating the dynamics of interferon alpha induced antiviral responses" 
17:00 - 17:20  Mark Tomás Mc Auley (University of Chester, UK)
"A Novel Mathematical Model of Cholesterol Metabolism and its Intersection with Atherosclerosis"
17:20 - 17:40  Alejandro Villaverde (University of Vigo, Spain)
"Repairing dynamic models: a method to obtain identifiable and observable reparameterizations with mechanistic insights"
17:40 - 18:00  Charles Barker (EMBL-EBI, UK)
"Identification of phenotype-specific networks from paired gene expression-phenotype data"

Thursday, March 4th

9:00  Hackathon

18:00  Closing Remarks