Learning to adapt: rational personalization of adaptive therapy using deep reinforcement learning
Gallagher, K Strobl, M Park, D Spendlin, F Gatenby, R Maini, P Anderson, A Cancer Research volume 84 issue 3 S2 (01 Feb 2024)
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Mathematical oncologists apply mathematical and computational models to every aspect of cancer biology, from tumor initiation to malignant spread and treatment response. A substantial amount of medical research now focuses on the molecular biology of individual tumors to selectively target pathways involved in tumor progression, leading to careful manipulation of these pathways, and new cell-specific approaches to cancer therapy are now being developed. 

In-situ estimation of ice crystal properties at the South Pole using LED calibration data from the IceCube Neutrino Observatory
Abbasi, R Ackermann, M Adams, J Aggarwal, N Aguilar, J Ahlers, M Ahrens, M Alameddine, J Alves, A Amin, N Andeen, K Anderson, T Anton, G Argüelles, C Ashida, Y Athanasiadou, S Axani, S Bai, X Balagopal, A Baricevic, M Barwick, S Basu, V Bay, R Beatty, J Becker, K Tjus, J Beise, J Bellenghi, C Benda, S BenZvi, S Berley, D Bernardini, E Besson, D Binder, G Bindig, D Blaufuss, E Blot, S Bontempo, F Book, J Borowka, J Meneguolo, C Böser, S Botner, O Böttcher, J Bourbeau, E Braun, J Brinson, B Brostean-Kaiser, J Burley, R Busse, R Campana, M Carnie-Bronca, E Chen, C Chen, Z Chirkin, D Choi, K Clark, B Classen, L Coleman, A Collin, G Connolly, A Conrad, J Coppin, P Correa, P Countryman, S Cowen, D Cross, R Dappen, C Dave, P De Clercq, C DeLaunay, J López, D Dembinski, H Deoskar, K Desai, A Desiati, P de Vries, K de Wasseige, G DeYoung, T Diaz, A Díaz-Vélez, J Dittmer, M Dujmovic, H DuVernois, M Ehrhardt, T Eller, P Engel, R Erpenbeck, H Evans, J Evenson, P Fan, K Fazely, A Fedynitch, A Feigl, N Fiedlschuster, S Fienberg, A Finley, C Fischer, L Fox, D Franckowiak, A Friedman, E Fritz, A Fürst, P Gaisser, T Gallagher, J Ganster, E Garcia, A Garrappa, S Gerhardt, L Ghadimi, A Glaser, C Glüsenkamp, T Glauch, T Goehlke, N Gonzalez, J Goswami, S Grant, D Gray, S Grégoire, T Griswold, S Günther, C Gutjahr, P Haack, C Hallgren, A Halliday, R Halve, L Halzen, F Hamdaoui, H Minh, M Hanson, K Hardin, J Harnisch, A Hatch, P Haungs, A Helbing, K Hellrung, J Henningsen, F Heuermann, L Hickford, S Hill, C Hill, G Hoffman, K Hoshina, K Hou, W Huber, T Hultqvist, K Hünnefeld, M Hussain, R Hymon, K In, S Iovine, N Ishihara, A Jansson, M Japaridze, G Jeong, M Jin, M Jones, B Kang, D Kang, W Kang, X Kappes, A Kappesser, D Kardum, L Karg, T Karl, M Karle, A Katz, U Kauer, M Kelley, J Kheirandish, A Kin, K Kiryluk, J Klein, S Kochocki, A Koirala, R Kolanoski, H Kontrimas, T Köpke, L Kopper, C Koskinen, J Koundal, P Kovacevich, M Kowalski, M Kozynets, T Krupczak, E Kun, E Kurahashi, N Lad, N Gualda, C Larson, M Lauber, F Lazar, J Lee, J Leonard, K Leszczyńska, A Lincetto, M Liu, Q Liubarska, M Lohfink, E Love, C Mariscal, C Lu, L Lucarelli, F Ludwig, A Luszczak, W Lyu, Y Ma, Y Madsen, J Mahn, K Makino, Y Mancina, S Sainte, W Mariş, I Marka, S Marka, Z Marsee, M Martinez-Soler, I Maruyama, R McElroy, T McNally, F Mead, J Meagher, K Mechbal, S Medina, A Meier, M Meighen-Berger, S Merckx, Y Micallef, J Mockler, D Montaruli, T Moore, R Morse, B Moulai, M Mukherjee, T Naab, R Nagai, R Naumann, U Nayerhoda, A Necker, J Neumann, M Niederhausen, H Nisa, M Nowicki, S Pollmann, A Oehler, M Oeyen, B Olivas, A Orsoe, R Osborn, J O'Sullivan, E Pandya, H Pankova, D Park, N Parker, G Paudel, E Paul, L de los Heros, C Peters, L Peterson, J Philippen, S Pieper, S Pizzuto, A Plum, M Popovych, Y Porcelli, A Rodriguez, M Pries, B Procter-Murphy, R Przybylski, G Raab, C Rack-Helleis, J Rameez, M Rawlins, K Rechav, Z Rehman, A Reichherzer, P Renzi, G Resconi, E Reusch, S Rhode, W Richman, M Riedel, B Roberts, E Robertson, S Rodan, S Roellinghoff, G Rongen, M Rott, C Ruhe, T Ruohan, L Ryckbosch, D Cantu, D Safa, I Saffer, J Salazar-Gallegos, D Sampathkumar, P Herrera, S Sandrock, A Santander, M Sarkar, S Schaufel, M Schieler, H Schindler, S Schlüter, B Schmidt, T Schneider, J Schröder, F Schumacher, L Schwefer, G Sclafani, S Seckel, D Seunarine, S Sharma, A Shefali, S Shimizu, N Silva, M Skrzypek, B Smithers, B Snihur, R Soedingrekso, J Søgaard, A Soldin, D Spannfellner, C Spiczak, G Spiering, C Stamatikos, M Stanev, T Stein, R Stezelberger, T Stürwald, T Stuttard, T Sullivan, G Taboada, I Ter-Antonyan, S Thompson, W Thwaites, J Tilav, S Tollefson, K Tönnis, C Toscano, S Tosi, D Trettin, A Tung, C Turcotte, R Twagirayezu, J Ty, B Elorrieta, M Upshaw, K Valtonen-Mattila, N Vandenbroucke, J van Eijndhoven, N Vannerom, D van Santen, J Vara, J Veitch-Michaelis, J Verpoest, S Veske, D Walck, C Wang, W Watson, T Weaver, C Weigel, P Weindl, A Weldert, J Wendt, C Werthebach, J Weyrauch, M Whitehorn, N Wiebusch, C Willey, N Williams, D Wolf, M Wrede, G Wulff, J Xu, X Yanez, J Yildizci, E Yoshida, S Yu, S Yuan, T Zhang, Z Zhelnin, P
Search for TeV Neutrinos from Seyfert Galaxies in the Southern Sky using Starting Track Events in IceCube
Yu, S Kheirandish, A Liu, Q Niederhausen, H Abbasi, R Ackermann, M Adams, J Agarwalla, S Aguilar, J Ahlers, M Alameddine, J Amin, N Andeen, K Anton, G Argüelles, C Ashida, Y Athanasiadou, S Axani, S Bai, X Balagopal V, A Baricevic, M Barwick, S Basu, V Bay, R Beatty, J Becker Tjus, J Beise, J Bellenghi, C Benning, C BenZvi, S Berley, D Bernardini, E Besson, D Blaufuss, E Blot, S Bontempo, F Book, J Boscolo Meneguolo, C BOSER, S Botner, O Bottcher, J Bourbeau, E Braun, J Brinson, B Brostean-Kaiser, J Burley, R Busse, R Butterfield, D Campana, M Carloni, K Carnie-Bronca, E Chattopadhyay, S Chau, T Chen, C Chen, Z Chirkin, D Choi, S Clark, B Classen, L Coleman, A Collin, G Connolly, A Conrad, J Coppin, P Correa, P Cowen, D Dave, P DE CLERCQ, C DeLaunay, J Delgado Lopez, D Deng, S Deoskar, K Desai, A Desiati, P de Vries, K de Wasseige, G DeYoung, T Diaz, A Diaz-Velez, J Dittmer, M Domi, A Dujmovic, H DuVernois, M Ehrhardt, T Eller, P Ellinger, E El Mentawi, S Elsässer, D Engel, R Erpenbeck, H Evans, J Evenson, P Fan, K Fang, K Farrag, K Fazely, A Fedynitch, A Feigl, N Fiedlschuster, S Finley, C Fischer, L Fox, D Franckowiak, A Fritz, A Furst, P Gallagher, J Ganster, E Garcia, A Gerhardt, L Ghadimi, A Glaser, C Glauch, T Glusenkamp, T Goehlke, N Gonzalez, J Goswami, S Grant, D Gray, S Gries, O Griffin, S Griswold, S Groth, K Günther, C Gutjahr, P Haack, C Hallgren, A Halliday, R Halve, L Halzen, F Hamdaoui, H Ha Minh, M Hanson, K Hardin, J Harnisch, A Hatch, P Haungs, A Helbing, K Hellrung, J Henningsen, F Heuermann, L Heyer, N Hickford, S Hidvegi, A Hill, C Hill, G Hoffman, K Hori, S Hoshina, K Hou, W Huber, T Hultqvist, K Hunnefeld, M Hussain, R Hymon, K In, S Ishihara, A Jacquart, M Janik, O Jansson, M Japaridze, G Jeong, M Jin, M Jones, B Kang, D Kang, W Kang, X Kappes, A Kappesser, D Kardum, L Karg, T Karl, M Karle, A Katz, U Kauer, M Kelley, J Khatee Zathul, A Kiryluk, J Klein, S Kochocki, A Koirala, R Kolanoski, H Kontrimas, T Kopke, L Kopper, C Koskinen, J Koundal, P Kovacevich, M Kowalski, M Kozynets, T Jayakumar, K Kruiswijk, K Krupczak, E Kumar, A Kun, E Neilson, N Lad, N Lagunas Gualda, C Lamoureux, M Larson, M Latseva, S Lauber, F Lazar, J Lee, J Leonard DeHolton, K Leszczynska, A Lincetto, M Liubarska, M Lohfink, E Love, C Lozano Mariscal, C Lu, L Lucarelli, F Luszczak, W Lyu, Y Madsen, J Mahn, K Makino, Y Manao, E Mancina, S Marie Sainte, W Maris, I Marka, S Marka, Z Marsee, M Martinez-Soler, I Maruyama, R Mayhew, F McElroy, T McNally, F Mead, J Meagher, K Mechbal, S Medina, A Meier, M Merckx, Y Merten, L Micallef, J Mitchell, J Montaruli, T Moore, R Morii, Y Morse, B Moulai, M Mukherjee, T Naab, R Nagai, R Nakos, M Naumann, U Necker, J Negi, A Neumann, M Nisa, M Noell, A Novikov, A Nowicki, S Pollmann, A O'Dell, V Oehler, M Oeyen, B Olivas, A Orsoe, R Osborn, J O'Sullivan, E Pandya, H Park, N Parker, G Paudel, E Paul, L Pérez de los Heros, C Peterson, J Philippen, S Pizzuto, A Plum, M Ponten, A Popovych, Y Prado Rodriguez, M Pries, B Procter-Murphy, R Przybylski, G Raab, C Rack-Helleis, J Rawlins, K Rechav, Z Rehman, A Reichherzer, P Renzi, G Resconi, E Reusch, S Rhode, W Riedel, B Rifaie, A Roberts, E Robertson, S Rodan, S Roellinghoff, G Rongen, M Rott, C Ruhe, T Ruohan, L Ryckbosch, D Safa, I Saffer, J Salazar-Gallegos, D Sampathkumar, P Sanchez Herrera, S Sandrock, A Santander, M Sarkar, S Savelberg, J Savina, P Schaufel, M Schieler, H Schindler, S Schlickmann, L Schlüter, B Schlüter, F Schmeisser, N Schmidt, T Schneider, J Schröder, F Schumacher, L Schwefer, G Sclafani, S Seckel, D Seikh, M Seunarine, S Shah, R Sharma, A Shefali, S Shimizu, N Silva, M Skrzypek, B Smithers, B Snihur, R Soedingrekso, J Sogaard, A Soldin, D Soldin, P Sommani, G Spannfellner, C Spiczak, G Spiering, C Stamatikos, M Stanev, T Stezelberger, T Sturwald, T Stuttard, T Sullivan, G Taboada, I Ter-Antonyan, S Thiesmeyer, M Thompson, W Thwaites, J Tilav, S Tollefson, K Tönnis, C Toscano, S Tosi, D Trettin, A Tung, C Turcotte, R Twagirayezu, J Ty, B Unland Elorrieta, M Upadhyay, A Upshaw, K Valtonen-Mattila, N Vandenbroucke, J van Eijndhoven, N Vannerom, D van Santen, J Vara, J Veitch-Michaelis, J Venugopal, M Vereecken, M Verpoest, S Veske, D Vijai, A Walck, C Weaver, C Weigel, P Weindl, A Weldert, J Wendt, C Werthebach, J Weyrauch, M Whitehorn, N Wiebusch, C Willey, N Williams, D Witthaus, L Wolf, A Wolf, M Wrede, G Xu, X Yanez, J Yildizci, E Yoshida, S Young, R Yu, F Yuan, T Zhang, Z Zhelnin, P Zimmerman, M 1533 (20 Aug 2023)
Tue, 04 Jun 2024

14:30 - 15:00
L3

Structure-preserving low-regularity integrators for dispersive nonlinear equations

Georg Maierhofer
(Mathematical Institute (University of Oxford))
Abstract

Dispersive nonlinear partial differential equations can be used to describe a range of physical systems, from water waves to spin states in ferromagnetism. The numerical approximation of solutions with limited differentiability (low-regularity) is crucial for simulating fascinating phenomena arising in these systems including emerging structures in random wave fields and dynamics of domain wall states, but it poses a significant challenge to classical algorithms. Recent years have seen the development of tailored low-regularity integrators to address this challenge. Inherited from their description of physicals systems many such dispersive nonlinear equations possess a rich geometric structure, such as a Hamiltonian formulation and conservation laws. To ensure that numerical schemes lead to meaningful results, it is vital to preserve this structure in numerical approximations. This, however, results in an interesting dichotomy: the rich theory of existent structure-preserving algorithms is typically limited to classical integrators that cannot reliably treat low-regularity phenomena, while most prior designs of low-regularity integrators break geometric structure in the equation. In this talk, we will outline recent advances incorporating structure-preserving properties into low-regularity integrators. Starting from simple discussions on the nonlinear Schrödinger and the Korteweg–de Vries equation we will discuss the construction of such schemes for a general class of dispersive equations before demonstrating an application to the simulation of low-regularity vortex filaments. This is joint work with Yvonne Alama Bronsard, Valeria Banica, Yvain Bruned and Katharina Schratz.

Tue, 04 Jun 2024

14:00 - 14:30
L3

HJ-sampler: A Bayesian sampler for inverse problems of a stochastic process by leveraging Hamilton--Jacobi PDEs and score-based generative models

Tingwei Meng
(UCLA)
Abstract

The interplay between stochastic processes and optimal control has been extensively explored in the literature. With the recent surge in the use of diffusion models, stochastic processes have increasingly been applied to sample generation. This talk builds on the log transform, known as the Cole-Hopf transform in Brownian motion contexts, and extends it within a more abstract framework that includes a linear operator. Within this framework, we found that the well-known relationship between the Cole-Hopf transform and optimal transport is a particular instance where the linear operator acts as the infinitesimal generator of a stochastic process. We also introduce a novel scenario where the linear operator is the adjoint of the generator, linking to Bayesian inference under specific initial and terminal conditions. Leveraging this theoretical foundation, we develop a new algorithm, named the HJ-sampler, for Bayesian inference for the inverse problem of a stochastic differential equation with given terminal observations. The HJ-sampler involves two stages: solving viscous Hamilton-Jacobi (HJ) partial differential equations (PDEs) and sampling from the associated stochastic optimal control problem. Our proposed algorithm naturally allows for flexibility in selecting the numerical solver for viscous HJ PDEs. We introduce two variants of the solver: the Riccati-HJ-sampler, based on the Riccati method, and the SGM-HJ-sampler, which utilizes diffusion models. Numerical examples demonstrate the effectiveness of our proposed methods. This is an ongoing joint work with Zongren Zou, Jerome Darbon, and George Em Karniadakis.

Tue, 21 May 2024

14:30 - 15:00
L1

Computing with H2-conforming finite elements in two and three dimensions

Charlie Parker
(Mathematical Institute (University of Oxford))
Abstract

Fourth-order elliptic problems arise in a variety of applications from thin plates to phase separation to liquid crystals. A conforming Galerkin discretization requires a finite dimensional subspace of H2, which in turn means that conforming finite element subspaces are C1-continuous. In contrast to standard H1-conforming C0-elements, C1-elements, particularly those of high order, are less understood from a theoretical perspective and are not implemented in many existing finite element codes. In this talk, we address the implementation of the elements. In particular, we present algorithms that compute C1-finite element approximations to fourth-order elliptic problems and which only require elements with at most C0-continuity. The algorithms are suitable for use in almost all standard finite element packages. Iterative methods and preconditioners for the subproblems in the algorithm will also be presented.

Tue, 21 May 2024

14:00 - 14:30
L1

Goal-oriented adaptivity for stochastic collocation finite element methods

Thomas Round
(Birmingham University)
Abstract
Finite element methods are often used to compute approximations to solutions of problems involving partial differential equations (PDEs). More recently, various techniques involving finite element methods have been utilised to solve PDE problems with parametric or uncertain inputs. One such technique is the stochastic collocation finite element method, a sampling based approach which yields approximations that are represented by a finite series expansion in terms of a parameter-dependent polynomial basis.
 
In this talk we address the topic of goal-oriented strategies in the context of the stochastic collocation finite element method. These strategies are used to approximate quantities of interest associated with solutions to PDEs with parameter dependent inputs. We use existing ideas to estimate approximation errors for the corresponding primal and dual problems and utilise products of these estimates in an adaptive algorithm for approximating quantities of interest. We further demonstrate the utility of the proposed algorithm using numerical examples. These examples include problems involving affine and non-affine diffusion coefficients, as well as linear and non-linear quantities of interest.
Tue, 07 May 2024

14:30 - 15:00
L3

The application of orthogonal fractional polynomials on fractional integral equations

Tianyi Pu
(Imperial College London)
Abstract

We present a spectral method that converges exponentially for a variety of fractional integral equations on a closed interval. The method uses an orthogonal fractional polynomial basis that is obtained from an appropriate change of variable in classical Jacobi polynomials. For a problem arising from time-fractional heat and wave equations, we elaborate the complexities of three spectral methods, among which our method is the most performant due to its superior stability. We present algorithms for building the fractional integral operators, which are applied to the orthogonal fractional polynomial basis as matrices. 

Tue, 23 Apr 2024

14:30 - 15:00
L3

Topology optimisation method for fluid flow devices using the Multiple Reference Frame approach

Diego Hayashi Alonso
(Polytechnic School of the University of São Paulo)
Abstract

The main component of flow machines is the rotor; however, there may also be stationary parts surrounding the rotor, which are the diffuser blades. In order to consider these two parts simultaneously, the most intuitive approach is to perform a transient flow simulation; however, the computational cost is relatively high. Therefore, one possible approach is the Multiple Reference Frame (MRF) approach, which considers two directly coupled zones: one for the rotating reference frame (for the rotor blades) and one for the stationary reference frame (for the diffuser blades). When taking into account topology optimisation, some changes are required in order to take both rotating and stationary parts simultaneously in the design, which also leads to changes in the composition of the multi-objective function. Therefore, the topology optimisation method is formulated for MRF while also proposing this new multi-objective function. An integer variable-based optimisation algorithm is considered, with some adjustments for the MRF case. Some numerical examples are presented.

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