This week in MathOnco 231

nonheritable somatic mutations, cell barcoding, predictive modeling, antigen heterogeneity, and cell fate transitions

“This week in Mathematical Oncology” — Oct. 20, 2022

> mathematical-oncology.org

From the editor:

Today we feature articles on nonheritable somatic mutations, cell barcoding, predictive modeling, antigen heterogeneity, and cell fate transitions.

Enjoy,

Jeffrey West
jeffrey.west@moffitt.org

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“Curiosity is antifragile, like an addiction, and is magnified by attempts to satisfy it— books have a secret mission and ability to multiply, as everyone who has wall-to-wall bookshelves knows well.”
— N. N. Taleb

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1. The Adaptive Potential of Nonheritable Somatic Mutations
   Paco Majic, E. Yagmur Erten, Joshua L. Payne

2. Spatial epitope barcoding reveals clonal tumor patch behaviors
   Xavier Rovira-Clavé, Alexandros P. Drainas, Sizun Jiang, Yunhao Bai, …, Garry P. Nolan

3. Cellular barcoding to decipher clonal dynamics in disease
   Vijay G. Sankaran, Jonathan S. Weissman, Leonard I. Zon

4. Exploring approaches for predictive cancer patient digital twins: Opportunities for collaboration and innovation
   Eric A. Stahlberg, Mohamed Abdel-Rahman, Boris Aguilar, Alireza Asadpoure, …, Tanveer Syeda-Mahmood, Jinhua Wang, Qi Wang, Ioannis Zervantonakis

5. Control of cell state transitions
   Oleksii S. Rukhlenko, Melinda Halasz, Nora Rauch, Vadim Zhernovkov, Thomas Prince, Kieran Wynne, Stephanie Maher, Eugene Kashdan, Kenneth MacLeod, Neil O. Carragher, Walter Kolch, Boris N. Kholodenko

6. Investigating Two Modes of Cancer-Associated Antigen Heterogeneity in an Agent-Based Model of Chimeric Antigen Receptor T-Cell Therapy
   Tina Giorgadze, Henning Fischel, Ansel Tessier, Kerri-Ann Norton

1. Data-driven spatio-temporal modelling of glioblastoma
   Andreas Christ Sølvsten Jørgensen, Ciaran Scott Hill, Marc Sturrock, Wenhao Tang, Saketh R. Karamched, Dunja Gorup, Mark F. Lythgoe, Simona Parrinello, Samuel Marguerat, Vahid Shahrezaei

2. Observing Many Researchers Using the Same Data and Hypothesis Reveals a Hidden Universe of Uncertainty
   Nate Breznau, Eike Mark Rinke, Alexander Wuttke, Muna Adem, …, Stefan Zins, Tomasz Żółtak, Hung H. V. Nguyen

3. Cell division history encodes directional information of fate transitions
   Kun Wang, Liangzhen Hou, Zhaolian Lu, Xin Wang, Zhike Zi, Weiwei Zhai, Xionglei He, Christina Curtis, Da Zhou, Zheng Hu

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:

Based on the paper: “The evolutionary dynamics of extrachromosomal DNA in human cancers” in Nature Genetics

Artist: Weini Huang

Caption: “Extra-chromosomal DNA (ecDNA) is circular DNA generated due to chromosomal instability during cell replication. ecDNA has a high prevalence in tumour samples. Is it a by-product or a driving force of tumour progress where cells carrying ecDNA divide faster than those without ecDNA? Because of the lack of centromeres, the segregation of ecDNA copies between two daughter cells is random, which leads to a fast evolution of ecDNA heterogeneity among cells. We validated this fundamental hypothesis of random segregation in experiments, modeled the stochastic dynamics of ecDNA, and analysed its copy number distribution over time. This leads to multiple testable predictions to distinguish positively selected from neutral ecDNA, which are validated in various tumour cell lines as well as in patient data. "

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