This week in MathOnco 175
Intratumoral oxygen fluctuations, liquidCNA, transient mechanical cell interactions, Bayesian PK, Hawk-Dove games, and more...
“This week in Mathematical Oncology” — Newsletter
August 19, 2021
From the editor:
Welcome to another week of “This week in MathOnco” — this week’s edition has articles on intratumoral oxygen fluctuations, liquidCNA, transient mechanical cell interactions, Bayesian PK, Hawk-Dove games, and more...
- Jeffrey West
Bridging cell-scale simulations and radiologic images to explain short-time intratumoral oxygen fluctuations
Jessica L. Kingsley, James R. Costello, Natarajan Raghunand, Katarzyna A. Rejniak
LiquidCNA: Tracking subclonal evolution from longitudinal liquid biopsies using somatic copy number alterations
Eszter Lakatos, Helen Hockings, Maximilian Mossner, Weini Huang, Michelle Lockley, Trevor A. Graham
Interacting evolutionary pressures drive mutation dynamics and health outcomes in aging blood
Kimberly Skead, Armande Ang Houle, Sagi Abelson, Mawusse Agbessi, Vanessa Bruat, Boxi Lin, David Soave, Liran Shlush, Stephen Wright, John Dick, Quaid Morris, Philip Awadalla
Transient mechanical interactions between cells and viscoelastic extracellular matrix
Brandon Slater, Jing Li, Dhiraj Indana, Yihao Xie, Ovijit Chaudhuri, Taeyoon Kim
Easy and reliable maximum a posteriori Bayesian estimation of pharmacokinetic parameters with the open-source R package mapbayr
Félicien Le Louedec, Florent Puisset, Fabienne Thomas, Étienne Chatelut, Mélanie White-Koning
The longitudinal dynamics and natural history of clonal haematopoiesis
Margarete A Fabre, José Guilherme de Almeida, Edoardo Fiorillo, Emily Mitchell, …, Eoin McKinney, Francesco Cucca, Moritz Gerstung, George S Vassiliou
Optimal dynamic incentive scheduling for Hawk-Dove evolutionary games
Kristina Stuckey, Rajvir Dua, Yongqian Ma, Joseph Parker, Paul K Newton
Data-driven Discovery of Mathematical and Physical Relations in Oncology Data using Human-understandable Machine Learning
Daria Kurz, Carlos Salort Sanchez, Cristian Axenie
A persistent look at how tumours evade therapy
Nature News & Views
Karen Gomez & Raul Rabadan: “Understanding how resistance to chemotherapy occurs could lead to better anticancer treatments. Persister cells in tumours can contribute to this resistance. A method to characterize these cells in detail sheds light on their origins.”
aRtsy: Generative Art with R and ggplot2
”aRtsy is an attempt at making generative art available for the masses in a simple and standardized format. The package provides various algorithms for creating artworks in ggplot2 that incorporate some form of randomness (depending on the set seed). Each type of artwork is implemented in a separate function.”
The newsletter now has a dedicated homepage (thisweekmathonco.substack.com), which allows us to post cover artwork for each issue. We encourage submissions that coincide with the release of a recent paper from your group.
Caption: To examine the possible causes of rapid oxygen fluctuations on a cellular level, we developed a hybrid agent-based model to generate in silico tissues with numerically stable oxygen concentrations. We then attempted to computationally reproduce the experimentally recorded fluctuations based on either varying influx of oxygen from vessels or varying uptake of oxygen from cells. In this figure we show snapshots of a simulation of varying the influx in one of our regions of interest. The panels consist of contour maps of the simulated oxygen distribution, with the vessels circled. The color scheme of the contour map corresponds to that used in EPR imaging for the partial pressure of oxygen, where cyan represents low oxygenation and white represents high oxygenation. For more detail, read here.
Created by: Jessica Kingsley (@jessi_kings) and Kasia Rejniak (@RejniakLab)
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