I'll review recent results on timing in evolving cell populations. The stochasticity is taken into account by the use of branching processes, and the general question is the time it takes to produce cells with some specific properties. As an application the (possible) relapse time after cancer treatment will be discussed.

# Data Driven Modeling in Biology Subgroup (DDMB)

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# Sub-group minisymposia

##### MS01-DDMB:

Stochastic models of cancer: An update of theory and data

**Organized by:** Marek Kimmel (Rice University, United States), Simon Tavare (Columbia University, United States)

Note: this minisymposia has multiple sessions. The second session is **MS02-DDMB**.

**Tibor Antal***(School of Mathematics, Edinburgh University, Scotland, UK, UK)*

"Models of Tumor Progression"**Robert Beckman***(Lombardi Comprehensive Cancer Center and Innovation Center for Biomedical Informatics, Georgetown University Medical Center, Washington, DC, USA, USA)*

"Recent Advances in Genetic Instability and Dynamic Precision Medicine of Cancer"**Alexandre Bouchard-Côté***(Statistics, University of British Columbia, Vancouver, BC, Canada, Canada)*

"Inferring fitness of cancer subpopulations from time series --- Bayesian methods for the Wright-Fisher diffusion with selection"**Ivana Bozic***(Applied Mathematics, University of Washington, Seattle, WA, USA, USA)*

"Mathematical model of colorectal cancer initiation"

##### MS02-DDMB:

Stochastic models of cancer: An update of theory and data

**Organized by:** Marek Kimmel (Rice University, United States), Simon Tavare (Columbia University, United States)

Note: this minisymposia has multiple sessions. The second session is **MS01-DDMB**.

**Katharina Jahn***(Computational Biology Group, ETH Zurich, Zurich, Switzerland, Switzerland)*

"Dissecting Clonal Diversity Through High-Throughput Single-Cell Genomics"**Ximo Pechuan Jorge***(Institute of Cancer Research, London, UK, UK)*

"A Simple Computational Model to Infer Selective Coefficients in Barcode Evolution Experiments"**Luis Zapata Ortiz***(Institute of Cancer Research, London, UK, UK)*

"Evolutionary dynamics of cancer immunoediting predicts response to immunotherapy."**Jan Poleszczuk***(Nalecz Institute of Biocybernetics and Biomedical Engineering, Polish Academy of Sciences, Warsaw, Poland, Poland)*

"Microsimulation-based optimization of colorectal cancer screening strategies"

##### MS03-DDMB:

Mathematics of Cryopreservation: from tissue preparation to freezing and ice formation

**Organized by:** Robyn Shuttleworth (University of Saskatchewan, Canada), James Benson (University of Saskatchewan, Canada)

**Adam Higgins***(Oregon State University, United States)*

"Rational design of less toxic cryoprotectant solutions for cryopreservation"**Ross Warner***(Oregon State University, United States)*

"A general strategy for modeling the distribution of cryoprotectants in tissues"**Fatemeh Amiri***(University of Saskatchewan, Canada)*

"Agent based tissue modeling of ice propagation"**Janet A. W. Elliott***(University of Alberta, Canada)*

"Thermodynamics of Cell and Tissue Cryopreservation"

##### MS06-DDMB:

Advances in deterministic models of biochemical interaction networks

**Organized by:** Elisenda Feliu (University of Copenhagen, Denmark), Casian Pantea (West Virginia University, USA)

Note: this minisymposia has multiple sessions. The second session is **MS07-DDMB**.

**Balazs Boros***(University of Vienna, Austria)*

"Oscillations in deficiency-one mass-action systems"**Beatriz Pascual Escudero***(University of Copenhagen, Denmark)*

"Detecting concentration robustness in Reaction Networks"**Alan Rendall***(Johannes Gutenberg University, Mainz, Germany)*

"Global convergence to steady states in a model for the in-host dynamics of hepatitis C"**Murad Banaji***(Middlesex University London, UK)*

"Building Reaction Networks with Prescribed Properties"

##### MS07-DDMB:

Advances in deterministic models of biochemical interaction networks

**Organized by:** Elisenda Feliu (University of Copenhagen, Denmark), Casian Pantea (West Virginia University, USA)

Note: this minisymposia has multiple sessions. The second session is **MS06-DDMB**.

**Anne Shiu***(Texas A&M University, USA)*

"Absolute concentration robustness in networks with many conservation laws"**Stefan Mueller***(University of Vienna, Austria)*

"Monomial parametrizations of positive equilibria"**Badal Joshi***(California State University San Marcos, USA)*

"Preserving Robust Output despite highly variable reactant supplies"**Jiaxin Jin***(University of Wisconsin, Madison, USA)*

"Uniqueness of weakly reversible and deficiency zero realization"

##### MS08-DDMB:

Machine Learning and Data Science Approaches in Mathematical Biology: Recent Advances and Emerging Topics

**Organized by:** Paul Atzberger (University of California Santa Barbara, USA), Smita Krishnaswamy (Yale University, USA), Kevin Lin (University of Arizona, USA)

Note: this minisymposia has multiple sessions. The second session is **MS09-DDMB**.

**Smita Krishnaswamy***(Yale University, USA)*

"Geometric and Topological Approaches to Representation Learning in Biomedical Data"**Sui Tang***(UCSB, United States)*

"Data-driven discovery of interacting particle system using Gaussian processes"**Rose Yu***(University of California San Diego, USA)*

"Physics-Guided Deep Learning for Forecasting COVID-19"**Alan Aspuru-Guzik***(University of Toronto, USA)*

"Artificial Intelligence and Self-Driving Laboratories for Molecular Discovery"

##### MS09-DDMB:

Machine Learning and Data Science Approaches in Mathematical Biology: Recent Advances and Emerging Topics

**Organized by:** Paul Atzberger (University of California Santa Barbara, USA), Smita Krishnaswamy (Yale University, USA), Kevin Lin (University of Arizona, USA)

Note: this minisymposia has multiple sessions. The second session is **MS08-DDMB**.

**Zhuo-Cheng Xiao***(Courant Institute, NYU)*

"A data-informed mean-field approach to mapping cortical landscapes"**Andrea Arnold***(Worcester Polytechnic Institute, USA)*

"Data Assimilation for Time-Varying Parameter Estimation in Biological Systems"**John Fricks***(Arizona State University, USA)*

"A Bayesian Analysis of 2-D Motor-Cargo Complex Dynamics"**Mengyang Gu***(University of California, Santa Barbara, USA)*

"Uncertainty quantification and estimation in differential dynamic microscopy for biomaterials characterization"

##### MS11-DDMB:

Mathematical Modeling of Protein Dynamics

**Organized by:** Suzanne S. SINDI (University of California, Merced, USA)

Note: this minisymposia has multiple sessions. The second session is **MS12-DDMB**.

**Erwan HINGANT***(Universidad del Bío-Bío, Concepción, CHILE)*

"Stochastic nucleation for amyloid diseases"**Florence HUBERT***(Aix-Marseille Université, FRANCE)*

"Growth fragmention models to understand the dynamical instabilities of microtubules"**Paul LEMARRE***(Université de Lyon, FRANCE)*

"OvPrP oligomers - a short story of structural diversity"**Stéphanie PORTET***(University of Manitoba, CANADA)*

"Activation of OAS2 by dsRNA"

##### MS12-DDMB:

Mathematical Modeling of Protein Dynamics

**Organized by:** Suzanne S. SINDI (University of California, Merced, USA)

Note: this minisymposia has multiple sessions. The second session is **MS11-DDMB**.

**Human REZAEI***(INRAE, Jouy-en-Josas, FRANCE)*

"to be announced"**Maria Carla TESI***(Universitá di Bologna, ITALY)*

"The synergistic interplay between two proteins: a mathematical model for Alzheimer's disease"**Léon Matar TINE***(Université de Lyon, FRANCE)*

"Analysis and numerical simulations of a reaction-diffusion model with fixed active bodies: Application to Alzheimer's disease."**Laurent PUJO-MENJOUET***(Université de Lyon, FRANCE)*

"Alzheimer and Prion: a dangerous liaison"

##### MS13-DDMB:

Numerical methods in biomedical sciences

**Organized by:** Yifan Wang (University of California, Irvine, USA), Pejman Sanaei (New York Institute of Technology, USA)

Note: this minisymposia has multiple sessions. The second session is **MS14-DDMB**.

**Feng Fu***(Dartmouth University, USA)*

"Mathematical Modeling of Combination Cancer Immunotherapy"**Pejman Sanaei***(Mathematical modeling in tissue engineering, USA)*

"Mathematical modeling in tissue engineering"**Yifan Wang***(University of California Irvine, USA)*

"Lattice Boltzmann approach to study the evolutionary dynamics of stem-cell driven cancer"**Min-jhe Lu***(Department of Mathematics, Illinois institute of technology, Chicago, Illinois, USA)*

"Nonliner simulation of vascular tumor growth with a necrotic core and chemotaxis"

##### MS14-DDMB:

Numerical methods in biomedical sciences

**Organized by:** Yifan Wang (University of California, Irvine, USA), Pejman Sanaei (New York Institute of Technology, USA)

Note: this minisymposia has multiple sessions. The second session is **MS13-DDMB**.

**Sudhir Pathak***(skpathak@pitt.edu, USA)*

"Computational Modeling of the human brain tissue, Estimation and Quantifying tissue type"**Yuchi Qiu***(Michigan State University, USA)*

"Learning biomolecules in mutagenesis via topological and geometric modeling"**Yu (Andy) Huang***(Memorial Sloan Kettering Cancer Center, USA)*

"Computational Models of Transcranial Electrical Stimulation: Methodology, Optimization and Validations"**Mac Hyman***(Tulane University, USA)*

"A Bipartite Network Sexual Transmission Model to Inform Public Health Efforts for Controlling the Spread of Chlamydia Trachomatis"

##### MS15-DDMB:

Modelling and Methods in Mathematical Biology

**Organized by:** Anthony Kearsley (National Institute of Standards and Technology, USA)

**Julia Seilert***(Department of Food Process Engineering, Technische Universität Berlin, Germany)*

"Revisiting a model to predict pure triglyceride thermodynamic properties: parameter optimization and performance"**Adarsh Kumbhari***(School of Mathematics and Statistics, University of Sydney, Australia)*

" Modeling PD-L1 inside the tumor microenvironment"**Danielle Brager***(National Institute of Standards and Technology, USA)*

"Mathematically Investigating Retinitis Pigmentosa"**Anca Radulescu***(State University of New York at New Paltz, USA)*

"Estimating glutamate transporter surface density in mouse hippocampal astrocytes"

##### MS16-DDMB:

Image Analysis and Machine Learning for Bio-Medical Applications

**Organized by:** Amit Roy-Chowdhury (University of California, Riverside), G. Venugopala Reddy (University of California, Riverside)

Note: this minisymposia has multiple sessions. The second session is **MS16-DDMB**.

**B. S. Manjunath***(University of California, Santa Barbara)*

"3D cell/nuclei segmentation and tracking using deep networks"**Michelle Digman***(University of California, Irvine)*

"Quantifying Spatio-temporal dynamics and Metabolic Alterations of protein upon DNA Damage"**Cory Braker Scott***(University of California, Irvine)*

"Morphological Analysis of Biological Images Using Spectral Graph Theory and Graph Neural Networks"**Kevin Rodriguez***(University of California, Riverside)*

"Interplay between layer specific chemical signals and mechanical properties maintain the structure and shape of the shoot apical meristem in Arabidopsis"

##### MS17-DDMB:

Image Analysis and Machine Learning for Bio-Medical Applications

**Organized by:** Amit Roy-Chowdhury (University of California, Riverside), G. Venugopala Reddy (University of California, Riverside)

Note: this minisymposia has multiple sessions. The second session is **MS16-DDMB**.

**Henrik Jonsson***(Cambridge Sainsbury Laboratories, UK)*

"Integration of live imaging and spatial modelling in plant development"**Anuradha Kar***(ENS-Lyon, CNRS, France)*

"Deep learning for cellular segmentation in 3D confocal images"**Richard Smith***(Univ of Koln, Germany and John Innes Center, Norwich, UK)*

"Quantifying life on surfaces with MorphoGraphX"**Albert Do***(University of California, Riverside)*

"Multiscale modeling of the Arabidopsis shoot meristem signaling network"

##### 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"

##### MS19-DDMB:

Data-Driven Modeling and Analysis in Mathematical Biology

**Organized by:** Tomas Carino-Bazan (University of California, Santa Barbara, United States), Daniel Wilson (Boston University, United States)

Note: this minisymposia has multiple sessions. The second session is **MS20-DDMB**.

**Julie Hussin***(Université de Montréal, Montreal Heart Institute, Canada)*

"Evolutionary approaches to detect epistasis in large-scale genomic data"**Elana Fertig***(Johns Hopkins University, United States)*

"Identifying therapeutic resistance mechanisms in cancer with single-cell data and transfer learning"**Tomas Carino-Bazan***(University of California, Santa Barbara, United States)*

"Machine learning methods for fluid mechanics for learning low dimensional representations"**Lorin Crawford***(Microsoft Research New England, United States)*

"Statistical Frameworks for Discovering Biophysical Signatures in 3D Shapes and Images"

##### MS20-DDMB:

Data-Driven Modeling and Analysis in Mathematical Biology

**Organized by:** Tomas Carino-Bazan (University of California, Santa Barbara, United States), Daniel Wilson (Boston University, United States)

Note: this minisymposia has multiple sessions. The second session is **MS19-DDMB**.

**Daniel Wilson***(Boston University, United States)*

"Inferring the molecular reach of antibodies from antigen binding data using an agent-based spatial model"**Paul Atzberger***(University of California, Santa Barbara, United States)*

"Variational Autoencoders with Manifold Latent Spaces for Learning Nonlinear Dynamics"**Guy Wolf***(Université de Montréal; Mila - Quebec AI Institute, Canada)*

"Multiscale exploration of single cell data with geometric harmonic analysis"**John Lagergren***(Oak Ridge National Laboratory, United States)*

"Data-driven network analysis detects longitudinal environmental changes with impacts on food, energy, and pandemics"

# Sub-group poster presentations

##### DDMB Posters