This week in MathOnco 234

Tumor invasion, spatial genomics, DNA barcoding, quantifying morphology, and more

“This week in Mathematical Oncology” — Nov. 17, 2022

> mathematical-oncology.org

From the editor:

Today we feature articles on tumor invasion, spatial genomics, DNA barcoding, quantifying morphology, and more.

Also, applications for several PhD positions in related fields and the “High school student Internship Program in Integrated Mathematical Oncology” here at Moffitt are now open - please see the Jobs section below.

Enjoy,

Jeffrey West
jeffrey.west@moffitt.org

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“‘Elementary,’ he said. ‘It is one of those instances where the reasoner can produce an effect which seems remarkable to his neighbor, because the latter has missed the one little point which is the basis of the deduction.’”

-Sherlock Holmes to Dr. Watson, in Sir Arthur Conan Doyle, "The Crooked Man"

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1. The Tumor Invasion Paradox in Cancer Stem Cell-Driven Solid Tumors
   Alexandra Shyntar, Ashna Patel, Meghan Rhodes, Heiko Enderling, Thomas Hillen

2. Spatial genomics maps the structure, nature and evolution of cancer clones
   Artem Lomakin, Jessica Svedlund, Carina Strell, Milana Gataric, …, Hege Russnes, Moritz Gerstung, Mats Nilsson, Lucy R. Yates

3. Fluid-sensitive migration mechanisms predict association between metastasis and high interstitial fluid pressure in pancreatic cancer
   Geir Nævdal, Einar K. Rofstad, Kjetil Søreide, Steinar Evje

4. DNA barcoding reveals ongoing immunoediting of clonal cancer populations during metastatic progression and immunotherapy response
   Louise A. Baldwin, Nenad Bartonicek, Jessica Yang, Sunny Z. Wu, Niantao Deng, Daniel L. Roden, Chia-Ling Chan, Ghamdan Al-Eryani, Damien J. Zanker, Belinda S. Parker, Alexander Swarbrick, Simon Junankar

5. Aquila: a spatial omics database and analysis platform
   Yimin Zheng, Yitian Chen, Xianting Ding, Koon Ho Wong, Edwin Cheung

6. A Phase 1b Adaptive Androgen Deprivation Therapy Trial in Metastatic Castration Sensitive Prostate Cancer
   Jingsong Zhang, Jill Gallaher, Jessica J. Cunningham, Jung W. Choi…, Liang Wang, Joel S. Brown, Alexander R. Anderson, Robert A. Gatenby

7. Deep learning characterization of brain tumours with diffusion weighted imaging
   Cameron Meaney, Sunit Das, Errol Colak, Mohammad Kohandel

8. Adaptive therapy to circumvent drug resistance to tyrosine kinase inhibitors in cancer: is it clinically relevant?
   Amir Imran Faisal Hamdi, Soon Hin How, Mohammad Kaisarul Islam, Jonathan Chee Woei Lim, Johnson Stanslas

9. Quantifying the Morphology and Mechanisms of Cancer Progression in 3D in-vitro environments: Integrating Experiments and Multiscale Models
   Nikolaos M. Dimitriou; Salvador Flores-Torres; Joseph Matthew Kinsella; Georgios D. Mitsis

1. Measures of genetic diversification in somatic tissues at bulk and single cell resolution
   Marius E. Moeller, Nathaniel V. Mon Pere, Benjamin Werner, Weini Huang

2. An Oncospace for Human Cancers
   Guim Aguadé-Gorgorió, José Costa, Ricard Solé

3. The effect of environmental information on evolution of cooperation in stochastic games
   Maria Kleshnina, Christian Hilbe, Štěpán Šimsa, Krishnendu Chatterjee, Martin A. Nowak

4. Inferring Density-Dependent Population Dynamics Mechanisms through Rate Disambiguation for Logistic Birth-Death Processes
   Linh Huynh, Jacob G. Scott, Peter J. Thomas

5. Understanding and leveraging phenotypic plasticity during metastasis formation
   Saumil Shah, Lisa-Marie Philipp, Susanne Sebens, Arne Traulsen, Michael Raatz

1. Fitness seascapes in evolutionary medicine:
   A step beyond the fitness landscape model
   The Mathematical Oncology Blog
   Eshan S. King: “Disease populations within a patient, such as tumors or infectious, never experience a constant environment during treatment—the drug concentration within a patient rises and falls due to pharmacokinetic effects and diffusion within tissue generates a concentration gradient. In light of this, an important question to consider in evolutionary medicine is how we can predict the evolution of drug resistance when the selection pressure varies in time and space. To address this question, we explored fitness seascapes, which we model as collection of genotype-specific drug dose-response curves. In contrast to the fitness landscape model, where evolution is described as a hill-climbing process approaching the top of a fitness peak, peaks in fitness seascapes rise and fall as a function of drug concentration, analogous to the rising and falling of waves in an ocean.“

The newsletter now has a dedicated homepage where we post the cover artwork for each issue. We encourage submissions that coincide with the release of a recent paper from your group. This week’s artwork:

Artist: Ryan Schenck, featuring IMO Workshop X participants

Caption: "It has been a week and a half since the 10th annual IMO Workshop (IMO Workshop X, October 31–November 4, 2022). This year’s theme was “Cancer Communities.” Five teams competed for a $50,000 pilot grant award through a week of intense, interdisciplinary collaborations. These teams are represented here as individual houses, coloured by their teams’ colour: blue, green, purple, orange, and pink. At the beginning of the week, no team knows what combination of expertise they will have and what ideas/projects will emerge. The smoke from the chimneys of each team’s house is the product of the ideas that were generated from the workshop. Several smoke bubbles have pieces of the final presentation slides/figures that were presented on the final day of the workshop. The winning team, purple (the leader mathematical oncologist being Noemi Andor), slightly elevated above the rest, and team green in 2nd place (the leader mathematical oncologist being Renee Brady-Nicholls), but still a recipient of an additional $50,000 pilot grant bonus award. The backdrop was the official workshop artwork created by Jill Gallaher with help from Maximillian Strobl and Chandler Gatenbee. Together, this post-workshop piece speaks to the community of passionate, hardworking individuals that participate each year, the hosts this workshop every year, and the amazing science they produce."

Visit the mathematical oncology page to view jobs, meetings, and special issues. We will post new additions here, but the full list can found at mathematical-oncology.org.

1. Jobs

• Various PhD Positions in the Schumacher Lab - Deadline December 5, 2022

• PhD Position Personalized Medicine Within a Project Optimizing Non-Small Cell Lung Cancer Treatment (TU Delft; Katerina Stankova) - Deadline December 6, 2022

• High school student Internship Program in Integrated Mathematical Oncology

2. Conferences / Meetings

3. Special issues

• Call for Papers - Evolutionary Biology and Ecology of Cancer

  (Guest Editors: David Basanta, Ignacio González Bravo)

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