Stochastic reaction network models are a popular tool for studying the effects of dynamical randomness in biological systems. Such models are typically analysed by estimating the solution of the chemical master equation (CME) that describes the evolution of the probability distribution of the random state-vector representing molecular counts of the reacting species. The size of the CME system is typically very large or even infinite, and due to this high-dimensional nature accurate numerical solutions of the CME are very difficult to obtain. In this talk we will present a novel deep learning approach for estimating CME solutions and illustrate it with a number of examples. The proposed method only requires a handful of stochastic simulations and it yields not just the CME solution but also its sensitivities to all the model parameters.
Thursday, June 17 at 04:15am (PDT)Thursday, June 17 at 12:15pm (BST)Thursday, June 17 08:15pm (KST)
MS18-CBBS: Stochastic methods for biochemical reaction networks
Organized by: Wasiur KhudaBukhsh (The Ohio State University, United States), Hye-Won Kang (University of Maryland at Baltimore County, United States) Note: this minisymposia has multiple sessions. The second session is MS19-CBBS.
- Ankit Gupta (ETH Zurich, Switzerland) "A deep learning approach for solving chemical master equations"
- Grzegorz Rempala (The Ohio State University, United States) "Approximating bio-chemical dynamics using survival models"
- Jinsu Kim (University of California Irvine, USA) "Mixing times for stochastically modeled biochemical reaction systems"
- Wasiur KhudaBukhsh (The Ohio State University, United States) "Chemical reaction networks with covariates"
MS18-CDEV: Mathematical approaches to vascular biology
Organized by: Jessica Crawshaw (The University of Melbourne, Australia), James Osborne (The University of Melbourne, Australia), Lowell Edgar (The University of Edinburgh, Scotland) Note: this minisymposia has multiple sessions. The second session is MS17-CDEV.
- Jessica Crawshaw (The University of Melbourne, Australia) "To collapse or not to collapse: how do mechanical forces drive vascular regression?"
- Daria Stepanova (CRM Centre for Mathematical Research, Spain) "Multiscale approach to understanding cell rearrangements in early angiogenesis"
- Katie Bentley (The Crick Institute, England) "Filopodia speed up Notch selection of endothelial tip cells: in silico predictions confirmed in vivo"
- Lowell Edgar (The University of Edinburgh, U.K) "Force transmission between migrating endothelial agents regulates functional shunting during angiogenic remodelling"
MS18-DDMB: Mathematical Modeling of Exposure and Target Interaction in Pharmaceutical Development of Therapeutic Proteins
Organized by: Jeroen Elassaiss-Schaap (PD-value BV, Netherlands), Johannes Schropp (University of Konstanz, Germany)
- Leonid Gibiansky (QuantPharm LLC, North Potomac, MD, USA) "Target-mediated drug disposition in the pharmacokinetics of monoclonal antibodies and its quasi-steady state solutions"
- Wojciech Krzyzanski (University at Buffalo, USA) "Application of Quasi-equilibrium Approximation to Reduction of Complex Physiologically Based Pharmacokinetic Models of Monoclonal Antibodies"
- Johannes Schropp (University of Konstanz, Germany) "Bispecific-Antibodies: Properties, Approximation and Optimal Dosing Strategy"
- Weirong Wang (Janssen, USA) "Target-mediated drug disposition of immuno-oncology drugs: mathematical models for exposure and pharmacodynamics, and its translation between animal and man"
MS18-EVOP: Collective Behavior and Social Evolution
Organized by: Daniel Cooney (University of Pennsylvania, USA) & Olivia Chu (Princeton University, USA) Note: this minisymposia has multiple sessions. The second session is MS16-EVOP.
- Ricardo Martinez-Garcia (ICTP South American Institute for Fundamental Research) "The exploitative segregation of plant roots: a game-theory approach to below-ground plant growth"
- Max Souza (Fluminense Federal University) "Stochastic evolution of finite populations: the fingerprints of fixation"
- Nina Fefferman (University of Tennessee) "How infectious diseases may have shaped the evolution of social organization"
- Joseph Johnson (University of Michigan) "A Dynamical Model for the Origin of Anisogamy"
MS18-IMMU: Intravital imaging in immunology: experimental and computational approaches
Organized by: Barun Majumder (University of Tennessee, USA), Soumen Bera (University of Tennessee, USA) Note: this minisymposia has multiple sessions. The second session is MS17-IMMU.
- Paulus Mrass (Department of Molecular Genetics and Microbiology, University of New Mexico, USA) "Quantitative imaging identifies CXCR4 as a molecular switch that balances confinement and ballisitic migration of cytotoxic T cells within flu- infected lungs"
- Arja Ray (Department of Pathology, University of California San Francisco, USA) "Visualizing T cell behavior in solid tumors to define barriers to immunotherapy"
- Judy Cannon (University of New Mexico School of Medicine, USA) "Effect of tissue environment on T cell movement"
- Soumen Bera (Department of Microbiology, University of Tennessee Knoxville, USA) "Mathematical modeling of CD8 T cell-mediated elimination of malaria liver stages using intravital imaging experiments"
MS18-MEPI: Women in Mathematical Epidemiology
Organized by: Katharine Gurski (Howard University, United States), Kathleen Hoffman (University of Maryland, Baltimore County, United States) Note: this minisymposia has multiple sessions. The second session is MS19-MEPI.
- Zhilan Feng (Purdue University, United States) "Applications of mathematical models in epidemiology"
- Marissa Renardy (Applied BioMath, United States) "Structural identifiability analysis of PDEs: A case study in continuous age-structured epidemic models"
- Olivia Prosper (University of Tennessee Knoxville, United States) "Within-mosquito parasite heterogeneity and its impact on population-level malaria transmission"
- Miranda Teboh-Ewungkem (Lehigh University, Lehigh University) "Using Continuous-time Systems of Non-Linear Ordinary Differential Equations to study Removal of Mosquito-Breeding Site Density Under Community Action and Temperature Effects"
MS18-MFBM: Mechanical Models of Complex Diseases
Organized by: Fabian Spill (University of Birmingham, USA)
- Vijay Rajagopal (University of Melbourne, Australia) "Surface area-to-volume ratio, not cellular viscoelasticity is the major determinant of red blood cell traversal through small channels."
- Bindi Brook (University of Nottingham, UK) "Inflammation driven mechanical model of asthmatic airway remodelling"
- Herbert Levine (Northeastern University, USA) "The role of extracellular matrix in motility and metastasis"
- Stephanie Fraley (University of California San Diego, USA) "A spatial model of YAP/TAZ mechanotransduction reveals new insights into how cells sense ECM dimensionality"
MS18-MMPB: Mathematics of Microswimming
Organized by: Qixuan Wang (UC Riverside, United States), Bhargav Rallabandi (UC Riverside, United States), Mykhailo Potomkin (UC Riverside, United States) Note: this minisymposia has multiple sessions. The second session is MS19-MMPB.
- Chaouqi Misbah (CNRS and Univ. Grenoble, France) "Swimming of Cells and Artificial Particles Driven by Shape Changes and Chemical Activity"
- Kirsty Wan (University of Exeter, United Kingdom) "Locomotor patterning in quadriflagellate microswimmers: lessons from quadrupeds and robots"
- Hermes Gadêlha (Department of Engineering Mathematics and Bristol Robotics Laboratory, University of Bristol, United Kingdom) "Coarse-graining formulations for sperm swimming and other flagellates"
- Ye Chen (New Jersey Institute of Technology, United States) "Helical locomotion in a porous medium"
MS18-NEUR: Mathematical Models for Decision-Making
Organized by: Nicholas Barendregt (University of Colorado Boulder, United States), Jonathan Rubin (University of Pittsburgh, United States)
- Nicholas Barendregt (University of Colorado Boulder, United States) "Normative and dynamic decision urgency in unpredictable environments"
- Timothy Verstynen (Carnegie Mellon University, United States) "Rethinking the computational architecture of cortico-basal ganglia-thalamic pathways"
- Alex Roxin (Centre de Recerca Matemàtica, Spain) "Bump attractor dynamics underlying stimulus integration in perceptual estimation tasks"
- Wiktor Mlynarski (Institute of Science and Technology Austria, Austria) "Attention as efficient and adaptive inference in dynamic environments"
MS18-ONCO: Measuring and modeling the cell-state transitions in cancer progression and treatment
Organized by: Mohit Kumar Jolly ( Assistant Professor, Center for Biosystems Science and Engineering, Indian Institute of Sceince Bengaluru, India), Kishore Hari (PhD Student, Center for Biosystems Science and Engineering, Indian Institute of Sceince Bengaluru, India) Note: this minisymposia has multiple sessions. The second session is MS19-ONCO.
- Caterina AM La Porta (Professor of General Pathology Department of Environmental Science and Policy, University of Milan; CEO ComplexData SRL, Italy) "Explaining the dynamics of melanoma aggressiveness: at the crossroads between biology and artificial intelligence"
- Shensi Shen (West China Hospital, Sichuan University, Chengdu, China; Gustave Roussy Cancer Campus, Villejuif, France, China) "Persistent cancer cells : blazing the trail with metastatic melanoma"
- Michael P H Stumpf (Professor of Systems Biology, School of BioSciences, University of Melbourne, Australia) " Stochastic Dynamics and Cell Fate Decision Dynamics in Development and Cancer"
- Kishore Hari (PhD Student, Center for Biosystems Sceince and Engineering, Indian Institute of Science Bengaluru, India) "Mechanisms of phenotypic plasticity in Metastasis, a network topology perspective"