Scientific

Feelling Fundamental Principles of Bacterial Cell Physiology using Long-Term Time-Lapse Atomic Force Microscopy

Speaker: 
Haig Alexander Eskandarian
Date: 
Wed, Mar 16, 2022
Location: 
PIMS, University of British Columbia
Zoom
Online
Conference: 
Mathematical Biology Seminar
Abstract: 

Exposure of bacteria to cidal stresses typically select for the emergence of stress-tolerant cells refractory to killing. Stress tolerance has historically been attributed to the regulation of discrete molecular mechanisms, including though not limited to regulating pro-drug activation or pumps abrogating antibiotic accumulation. However, fractions of mycobacterial mutants lacking these molecular mechanisms still maintain the capacity to broadly tolerate stresses. We have sought to understand the nature of stress tolerance through a largely overlooked axis of mycobacterial-environmental interactions, namely microbial biomechanics. We developed Long-Term Time-Lapse Atomic Force Microscopy (LTTL-AFM) to dynamically characterize nanoscale surface mechanical properties that are otherwise unobservable using other established advanced imaging modalities. LTTL-AFM has allowed us to revisit and redefine fundamental biophysical principles underlying critical bacterial cell processes targeted by a variety of cidal stresses and for which no molecular mechanisms have previously been described. I aim to highlighting the disruptive power of LTTL-AFM to revisit dogmas of fundamental cell processes like cell growth, division, and death. Our studies aim to uncover new molecular paradigms for how mycobacteria physically adapt to stress and provide expanded avenues for the development of novel treatments of microbial infections.

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Humans Make Things Messy

Speaker: 
Shelby M. Scott
Date: 
Wed, Feb 16, 2022
Location: 
PIMS, University of British Columbia
Zoom
Online
Conference: 
Mathematical Biology Seminar
Abstract: 

Models become notably more complex when stochasticity is introduced. One of the best ways to add frustrating amounts of randomness to your model: incorporate humans. In this talk, I discuss three different ways in which humans have made things messy in my mathematical models, statistical models, and data science work. Despite the fact that humans do, indeed, make things messy, they also make our models so much more realistic, interesting, and intriguing. So while humans make things messy, it is so worth it to bring them into your work.

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Wasserstein gradient flows for machine learning

Speaker: 
Anna Korba
Date: 
Thu, Mar 17, 2022
Location: 
Online
Zoom
Conference: 
Kantorovich Initiative Seminar
Abstract: 

An important problem in machine learning and computational statistics is to sample from an intractable target distribution, e.g. to sample or compute functionals (expectations, normalizing constants) of the target distribution. This sampling problem can be cast as the optimization of a dissimilarity functional, seen as a loss, over the space of probability measures. In particular, one can leverage the geometry of Optimal transport and consider Wasserstein gradient flows for the loss functional, that find continuous path of probability distributions decreasing this loss. Different algorithms to approximate the target distribution result from the choice of the loss, a time and space discretization; and results in practice to the simulation of interacting particle systems. Motivated in particular by two machine learning applications, namely bayesian inference and optimization of shallow neural networks, we will present recent convergence results obtained for algorithms derived from Wasserstein gradient flows.

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Modular forms and their role in counting combinatorial and topological objects

Speaker: 
Josh Males
Date: 
Wed, Mar 9, 2022
Location: 
Online
Conference: 
Emergent Research: The PIMS Postdoctoral Fellow Seminar
Abstract: 

I will begin by introducing some of the most basic combinatorial objects - partitions. It turns out that their generating function is a prototypical example of a modular form. These are objects with infinite symmetry, in turn giving them extraordinary properties. I'll then talk about the asymptotic behaviour of various modular-type objects arising from combinatorics and topology using the Circle Method of Hardy-Ramanujan and Wright, as well as one can even obtain exact formulae. In particular, I'll highlight the asymptotic (non)-equidistribution properties of Betti numbers of various Hilbert schemes as well as t-hooks in partitions. This talk will include various works with configurations of my collaborators Kathrin Bringmann, Giulia Cesana, William Craig, Daniel Johnston, Ken Ono, and Aleksander Simonič.

Speaker Biography:

Joshua Males received his MMath (masters + bachelors) degree from Durham University, UK under the supervision of Jens Funke, before taking a year sabbatical in Durham. In late 2017 he joined Kathrin Bringmann's number theory group at the University of Cologne, Germany, where he earned his PhD in May 2021. Since August 2021, Joshua has been a PIMS postdoctoral fellow at the University of Manitoba, working under his mentor Siddarth Sankaran. His research focuses on modular forms and their use in number theory and beyond, with connections to combinatorics, topology, and arithmetic geometry. At the time of writing, Joshua has 8 published articles (4 solo author) and 6 preprints (1 solo author) as well as 3 more articles in the latter stages of preparation.

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Mathematician Helping Art Historians and Art Conservators

Speaker: 
Ingrid Daubechies
Date: 
Thu, Feb 24, 2022
Location: 
Online
Conference: 
PIMS Network Wide Colloquium
Abstract: 

Mathematics can help Art Historians and Art Conservators in studying and understanding art works, their manufacture process and their state of conservation. The presentation will review several instances of such collaborations, explaining the role of mathematics in each instance, and illustrating the approach with extensive documentation of the art works.

Speaker Biography

Ingrid Daubechies is a Belgian Physicist and Mathematician, one of the leaders in the area of wavelets, a part of applied harmonic analysis. Wavelets are widely used in data compression and image encoding. Indeed, a wavelet pioneered by Daubechies is the basis of the standard for digital cinema. Ingrid Daubechies has held positions at the Free University in Brussels, Princeton University, and is currently James B. Duke Professor at Duke University. She is a Member of the National Academy of Sciences and of the National Academy of Engineering and a Fellow of the American Association for the Advancement of Science. Ingrid Daubechies has received many awards including the Leroy P. Steele Prize for Seminal Contribution to Research of the American Mathematical Society.

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Meta-Analytic Inference for the COVID-19 Infection Fatality Rate

Speaker: 
Paul Gustafson
Date: 
Thu, Mar 3, 2022
Location: 
Online
Abstract: 

Estimating the COVID-19 infection fatality rate (IFR) has proven to be challenging, since data on deaths and data on the number of infections are subject to various biases. I will describe some joint work with Harlan Campbell and others on both methodological and applied aspects of meeting this challenge, in a meta-analytic framework of combining data from different populations. I will start with the easier case when the infection data are obtained via random sampling. Then I will discuss drawing in additional infection data obtained in decidedly non-random manner.

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Optimal transport theory in incomplete econometric models

Speaker: 
Marc Henry
Date: 
Thu, Feb 24, 2022
Location: 
Online
Zoom
Conference: 
Kantorovich Initiative Seminar
Abstract: 

This talk focuses on the central role played by optimal transport theory in the study of incomplete econometric models. Incomplete econometric models are designed to analyze microeconomic data within the constraints of microeconomic theoretic principles, such as maximization, equilibrium and stability. These models are called incomplete because they do not predict a single distribution for the variables observed in the data. Incompleteness arises because of multiple equilibria in game theoretic solutions, unobserved heterogeneity in choice sets, interval predictions in auctions, and unknown sample selection mechanisms. The problem of confronting the model parameters (possibly infinite dimensional) and the data can be formulated as an optimal transport problem, where the transport cost is some measure of departure from the microeconomic theoretic principles. We will discuss a selection of inference methodologies on the model parameter based on different choices of transport cost, and applications to industrial organization, consumer demand theory and network formation.

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Asymptotic analysis of the concentration difference due to diffusive fluxes across narrow windows

Speaker: 
Frédéric Paquin-Lefebvre
Date: 
Wed, Feb 9, 2022
Location: 
PIMS, University of British Columbia
Zoom
Online
Conference: 
Mathematical Biology Seminar
Abstract: 

How far inside a domain does a flux of Brownian particles perturb a background concentration when particles can escape through a neighboring window? What motivates this question is the dynamics of ions entering and exiting nanoregions of excitable cells through ionic membrane channels. Here this is explored using a simple diffusion model consisting of the Laplace's equation in a domain whose boundary is everywhere reflective except for a collection of narrow circular windows, where either flux or absorbing boundary conditions are prescribed. We derive asymptotic formulas revealing the role of the influx amplitude, the diffusion properties, and the geometry, on the concentration difference. Lastly, a length scale to estimate how deep inside a domain a local diffusion current can spread is introduced. This is joint work with David Holcman at ENS.

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The Geometric Structure of Possible Singularities for the Navier-Stokes and Euler Equations

Speaker: 
Evan Miller
Date: 
Wed, Feb 16, 2022
Location: 
Online, PIMS
Conference: 
Emergent Research: The PIMS Postdoctoral Fellow Seminar
Abstract: 

I will discuss several geometric constraints of the finite-time blowup of smooth solutions of the Navier-Stokes equation in the regularity criteria related to the eigenvalue structure of the strain matrix and to the vorticity direction. These regularity criteria suggest that strain self-amplification via axial compression/planar stretching drives any possible blowup. I will also discuss model equations where this form of blowup does indeed occur.

Speaker Biography:

Evan Miller received his PhD in mathematics from the University of Toronto under the supervision of Prof. Robert McCann in 2019. He was then a postdoc at McMaster University, working with Prof. Eric Sawyer. He was also a visiting postdoc at the Fields Institute in Toronto and the Mathematical Sciences Research Institute in Berkeley for thematic programs in mathematical fluid mechanics. At MSRI, he worked with Prof. Jean-Yves Chemin. Evan is now a PIMS postdoctoral fellow at the University of British Columbia working with Prof. Tai-Peng Tsai and Prof. Stephen Gustafson.

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Knot Floer homology of satellite knots

Speaker: 
Wenzhao Chen
Date: 
Wed, Feb 9, 2022
Location: 
PIMS
Online
Conference: 
Emergent Research: The PIMS Postdoctoral Fellow Seminar
Abstract: 

Knot Floer homology is a package of widely-used knot invariants constructed via pseudo-holomorphic curves. In this talk, we will restrict our attention to the knot Floer homology of a class of knots called satellite knots; understanding these invariants figure prominently in studying 4-dimensional questions in knot theory, such as analyzing surfaces bounded by knots in 4-manifolds. However, previous methods of computing these invariants are rather involved. In this talk, I will present a new and more effective way to compute the knot Floer homology of satellite knots; our approach is built on the immersed-curve technique introduced by Hanselman-Rasmussen-Watson in bordered Heegaard Floer homology. This talk is based on joint work in progress with Jonathan Hanselman.

Speaker Biography:

Wenzhao Chen obtained his Ph.D. at Michigan State University in 2019, where he studied Heegaard Floer homology and low dimensional topology under the supervision of Dr. Matt Hedden. He was a postdoc in the Max Planck Institue for Mathematics in Bonn from 2019 to 2021. Currently, He is a PIMS Postdoctoral Fellow at the University of British Columbia. He is working with Dr. Liam Watson in low-dimensional topology.

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