34,310 Works

Inference of cell state transition rates in heterogeneous stem cell populations

Linus Schumacher
The concept of cell states is increasingly used to classify cellular behaviour in development, regeneration, and cancer. This is driven in part by a deluge of data comprising snapshots of cell populations at single-cell resolution. Yet quantitative predictive models of cell states and their transitions remain lacking. Such models could help, for example, to optimise differentiation protocols in vitro. Here, starting with a tractable immunostaining dataset of transcription factor expression we explore systematically if cell...

Simulating cancer systems biology with PhysiCell: customized simulators, model exploration, and machine learning

Randy Heiland
Cutting-edge cancer treatments like immunotherapy and engineered microbes are examples of current and upcoming cell-based therapeutics. The success, failure, and side effects of these therapies critically depend upon multicellular cancer systems biology: the dynamical chemical and mechanical interactions between the engineered cells, tumor cells, and the microenvironment. Computational models can act as "virtual laboratories" for multicellular systems. The ideal laboratory would include cell and tissue biomechanics, biotransport of multiple chemical substrates including signaling factors, and...

Spreading Mechanics and Differentiation of Astrocytes During Retinal Development

Tracy Stepien
Retinal vasculature is essential for adequate oxygen supply to the inner layers of the retina, the light sensitive tissue in the eye. In embryonic development, formation of the retinal vasculature via angiogenesis is critically dependent on prior establishment of a mesh of astrocytes, which are a type of brain glial cell. Astrocytes emerge from the optic nerve head and then migrate over the retinal surface as a proliferating cell population in a radially symmetric manner....

Drift of steady states in Hamiltonian PDEs: two examples

Dmitry Pelinovski
Steady states in Hamiltonian PDEs are often constrained minimizers of energy subject to fixed mass and momentum. I will discuss two examples when the minimizers are degenerate so that spectral stability of minimizers does not imply their nonlinear stability due to lack of coercivity of the second variation of energy. For the example related to the conformally invariant cubic wave equation on three-sphere, we prove that integrability of the normal form equations results in nonlinear...

Ordered groups and topology â a personal journey

Dale Rolfsen
This talk will be an introduction to ordered groups and their connections with topology. Beginning with learning of the left-orderability of braid groups some decades ago, I will describe how I came to fall in love with the subject.

Deftly Divulging Delicate Data

Scott Baker
Open scholarship, which encompasses open science, open access, open data, open education, and all other forms of openness in the scholarly and research environment, is transforming how knowledge is created and shared. The 3rd annual Open Scholarship in Practice (OSiP) day was held at UBC on October 25, 2019 to explore innovative areas in open scholarship, and included a full day of hands-on workshops for faculty, staff, and students to learn how to incorporate Open...

Stochastically Organizing the Early Mammalian Embryo

Bill Holmes
A critical first even in mammalian development is construction of the inner cell mass and trophoectoderm surrounding it. Using imaging and computational modeling, we show that by controlling the pace of cell fate specification, the embryo creates a crucial window of time where regulatory noise promotes accurate organization of these structures. Imaging results further indicate different gene products (Oct4 and Cdx2) exhibit significantly different levels of noise variation. Surprisingly, this asymmetry provides a novel means...

Complexity of positive cones of limit groups, part 2

Yago Antolin

Discussion: The classroom as a stage

Kari Marken
What can instructors learn from actors This discussion begins as a dialogue, and ends as an open-ended discussion involving the entire group. Kari Marken, Dan Wolczuk


Thomas Koberda

Ductal Microinvasions: Cell and Matrix Interactions in Normal and Cancerous Tissues

Katarzyna Rejniak
Progression from a ductal carcinoma in situ (DCIS) to an invasive tumor is a major step initiating a devastating and often lethal metastatic cascade. We will discuss biological events leading to the formation of small invasive cohorts streaming from the DCIS. Using mathematical models on micro- and macro-scales integrated with information extracted from patientsâ histology samples, we investigated how changes in the local microenvironmental niche near the DCIS edge enable initiation and progression of ductal...

Study the mechanical effect in collective movement of two cells using Cellular Potts Model

Haicen Yue
Collective cell movement is closely related to normal development and cancer metastasis and scientists are studying it from different points of view, on different scales and using different biological systems. We would like to study its mechanism focusing on the mechanical and morphological effects using Cellular Potts Model. Our model is based on the experiments on the trunk ventral cells (TVCs) in Ciona cardiopharyngeal progenitors which include only two migratory cells so that it is...

Quantifying zebrafish pattern variability and model robustness

Alexandria Volkening
Wild-type zebrafish feature black and yellow stripes across their body and fins, but mutants display a range of altered patterns, including spots and labyrinth curves. All these patterns form due to the interactions of pigment cells, which sort out through movement, birth, competition, and transitions in cellular shape during early development. The diversity of patterns on zebrafish makes it a useful organism for helping elucidate how genes, cell behavior, and visible animal characteristics are related,...

Mathematical modeling of cell shape and collective cell behavior due to cell-ECM cross-talk

Roeland Merks
To form patterns in vivo or in vitro, cells must carefully coordinate their behavior. Here I will present mathematical modeling approaches for modeling cell-ECM cross-talk. The models predict how the ECM can regulate the shape of individual cells, and how it can coordinate collective cell behavior as it occurs, e.g., during the formation of blood vessels or the alignment of cells in muscles and tendons. After discussing these initial models, I will show how detailed...

Biological lattice-gas cellular automaton models for the analysis of collective effects in cancer invasion

Andreas Deutsch
Cancer invasion may be viewed as collective phenomenon emerging from the interplay of individual biological cells with their environment. Cell-based mathematical models can be used to decipher the rules of interaction. In these models cells are regarded as separate movable units. Here, we introduce an integrative modelling approach based on mesoscopic biological lattice-gas cellular automata (BIO-LGCA) to analyse collective effects in cancer invasion. This approach is rule- and cell-based, computationally efficient, and integrates statistical and...

Investigating the mechanisms underlying collective migration of heterogeneous groups of cells during tissue morphogenesis and cancer metastasis

Kyra Campbell
Embryonic development requires the precise spatio-temporal activation of specific cell behaviours such as migration and division. Re-activation of these processes in adult cells is a hallmark of cancer. This makes experimental models for studying developmental processes, such as the fruit fly Drosophila melanogaster, highly informative for cancer studies: such research has often provided the first glimpse into the mechanism of action of human cancer-related proteins. In our lab, we use Drosophila to study the basic...

Generalized torsion in 3-manifold groups and normal closures of slope elements

Tetsuya Ito
If a 3-manifold group does not admit a bi-ordering, then we may expect that it has a generalized torsion element. As a particular case, the fundamental group of any 3-manifold obtained by non zero surgery on a knot in the 3-sphere may have such an element. Then there are two situations: (1) a generalized torsion element in a knot group becomes a generalized torsion element in the surgered 3-manifold, or (2) a generalized torsion element...

Pattern formation in a membrane-bulk model for cell polarity and intracellular oscillations

Alexandra Jilkine

From Networks to Function â Computational Models of Organogenesis

Dagamar Iber
One of the major challenges in biology concerns the integration of data across length and time scales into a consistent framework: how do macroscopic properties and functionalities arise from the molecular regulatory networks and how do they evolve Morphogenesis provides an excellent model system to study how simple molecular networks robustly control complex pattern forming processes. In my talk, I will focus on lung and kidney branching morphogenesis and discuss how chemical signaling and mechanical...

The essential role of feedback in the control of proliferation: implications for normal biology and cancer

Arthur Lander
The robustness of biological performance, whether developmental or physiological, relies heavily on feedback control. The autocatalytic nature of cell proliferation makes such control especially important in tissue homeostasis, and multiple mechanisms of cell cooperation have been describedâand seem to be universally necessaryâjust to balance cell turnover with spatially even, constant cell production, achieve physiologically desirable steady states, respond quickly to perturbations, and resist breaking down in the face of common somatic mutation. It is thus...

Generalized torsion in 3-manifold groups and normal closures of slope elements

Kimihiko Motegi
If a 3-manifold group does not admit a bi-ordering, then we may expect that it has a generalized torsion element. As a particular case, the fundamental group of any 3-manifold obtained by non zero surgery on a knot in the 3-sphere may have such an element. Then there are two situations: (1) a generalized torsion element in a knot group becomes a generalized torsion element in the surgered 3-manifold, or (2) a generalized torsion element...

Groups of piecewise linear homeomorphisms of flows

Nicolás Matte Bon
Given a compact space endowed with a flow, every group of orbit-preserving homeomorphisms of the space naturally acts on the real line (identified with an orbit of the flow). This simple observation can be used to define interesting examples of left-orderable groups. In a joint work with Michele Triestino, we explore this idea by defining and studying a class of groups acting on suspension flows of homeomorphisms of the Cantor set. I will explain how...

Unravelling a mechanobiochemical model for 3D cell migration

Anotida Madzvamuse
In this talk, I will present a mechanobiochemical model for 3D cell migration which couples the actomyosin dynamics described by a system of reaction-diffusion equations on evolving volumes and a force balance viscoelastic mechanical model for the cell displacements. The novelty is that the pressure and contractile forces are influenced by actin and myosin spatiotemporal dynamics. To analyse the model, we carry out linear stability analysis to determine key bifurcation parameters and find analytical solutions...

A novel approach to investigate transitions in tutor tissue architecture using computational topology

Dhananjay Bhaskar

Panel: Looking in

Edward Doolittle
Panelists discuss what they see and hope for in university mathematics instruction, from their particular â outsider-insiderâ perspectives. Ed Doolittle, Kari Marken, Rina Zazkis

Registration Year

  • 2019

Resource Types

  • Audiovisual


  • University of Iowa
  • Oxford Brookes University
  • National Council for Scientific Research
  • University of Wisconsin–Madison
  • Institute of Environmental Science and Research