This week in MathOnco 336

Clonal dynamics, population extinction, treatment personalization, cell plasticity, and more..

“This week in Mathematical Oncology” — July 17, 2025

> mathematical-oncology.org

From the editor:

Lots of interesting paper this week on topics like clonal dynamics, population extinction, treatment personalization, cell plasticity, and more..

Enjoy,

Jeffrey West
jeffrey.west@moffitt.org

1. Personalized cancer treatment strategies incorporating irreversible and reversible drug resistance mechanisms.
   He W, McCoy MD, Riggins RB, Beckman RA, Yeang CH

2. Precision Prevention Studies: A Targeted Approach to Cancer Prevention
   Sarah P. Blagden; Kevin W. Dodd; Karen Brown; Eva Szabo

3. Extrachromosomal DNA: shaping the evolutionary dynamics of cancer
   Magnus Haughey, Imran Noorani, Charles Swanton, Paul S. Mischel, Benjamin Werner

4. Mathematical modelling of cancer cell evolution and plasticity

   Chloé Colson, Frederick JH. Whiting, Ann-Marie Baker, Trevor A. Graham

5. Modeling changes in genetic heterogeneity using games with resources.
   Hajdowska K, Swierniak A, Borys D.

6. Comprehensive analysis of mutational processes across 20 000 adult and pediatric tumors.
   Villa M, Malighetti F, De Sano L, Villa AM, Cordani N, Aroldi A, Antoniotti M, Caravagna G, Graudenzi A, Piazza R, Mologni L, Ramazzotti D.

7. Logistic models inspired by non-Gaussian statistics: an application to tumor growth
   L. L. Sales & M. M. F. de Lima

1. Noise Reinstates Collapsed Populations: Stochastic Reversal of Deterministic Extinction
   Vinesh Vijayan, B Priyadharshini, R Sathish Kumar, G Janaki

2. CLONEID: A Framework for Longitudinal Integration of Phenotypic and Genotypic Data to Monitor and Steer Subclonal Dynamics.
   Veith T, Beck R, Tagal V, Li T, Alahmari S, Cole J, Hannaby D, Kyei J, Yu X, Maksin K, Schultz A, Lee H, ElNaqa I, Eschrich S, Ji HP, Diaz A, Andor N.

3. SpatialMap: A Scalable Deep Learning Method for Cell Typing in Subcellular Spatial Transcriptomics
   Pengzhen Jia, Yahui Long, Yichao Zhao, Ning Zhang, Zhaoyu Fang, Siqi Chen, Min Li

1. Ryan Murphy

   Math Oncology Interviews by Thomas Hillen (YouTube)

The newsletter 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:

Based on the paper: Bringing evolutionary cancer therapy to the clinic: a systems approach published in npj systems biology and applications

Artist: Arina Soboleva

Caption: Despite demonstrating promising outcomes in the clinical trials, evolutionary cancer therapy (ECT) faces technical and cultural challenges in its clinical implementation. These challenges are related to the high resource demands of the approach, regulatory concerns and mistrust and resistance in the medical field. In our paper, we propose a systems approach to address those challenges. We claim that ECT implementation requires hearing different perspectives from the relevant healthcare stakeholders, conceptualizing the problem to create a shared vison and coming to consensus on the safe and feasible implementation strategy. These steps are illustrated in the figure. The picture was enhanced using ChatGPT.

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