#MathOnco Issue 35: Hello world; cellular automata, driver gene, subclonal heterogeneity.
This week in
Mathematical Oncology
Sept. 13, 2018 ~ Issue 35
From the editor
Hello world,
I couldn't resist the cheesy coder's greeting this week to mark the release of a software known as "HAL" -- Hybrid Automata Library (pre-print link below). Having used this package myself for several math oncology-related projects I can vouch for its usefulness! Be sure to check out the documentation page with more details: halloworld.org.
In related news, I included a few links from a Springer book series on Cellular Automata, alongside several intriguing papers on driver gene and subclonal heterogeneity.
-Jeffrey West
#MathOnco Publications
Game Theoretical Model of Cancer Dynamics with Four Cell Phenotypes
Authors: Elena Hurlbut, Ethan Ortega, Igor V. Erovenko and Jonathan T. Rowell
Minimal functional driver gene heterogeneity among untreated metastases
Authors: Johannes G. Reiter, Alvin P. Makohon-Moore, Jeffrey M. Gerold, Alexander Heyde, ..., Bert Vogelstein, Martin A. Nowak
Unravelling subclonal heterogeneity and aggressive disease states in TNBC through single-cell RNA-seq
Authors: Mihriban Karaayvaz, Simona Cristea, Shawn M. Gillespie, Anoop P. Patel, Ravindra Mylvaganam, Christina C. Luo, Michelle C. Specht, Bradley E. Bernstein, Franziska Michor & Leif W. Ellisen
Coexistence in Three-Species Cyclic Competition: Lattice-Based Versus Lattice-Free Individual-Based Models
Authors: Aisling J. Daly, Ward Quaghebeur, Tim Depraetere, Jan M. Baetens, Bernard De Baets
Precancerous neoplastic cells can move through the pancreatic ductal system
Authors: Alvin P. Makohon-Moore, Karen Matsukuma, Ming Zhang, Johannes G. Reiter, Jeffrey M. Gerold, ..., Bert Vogelstein & Christine A. Iacobuzio-Donahue
#MathOnco Preprints
Hybrid Automata Library
Authors: Rafael R Bravo, Mark Robertson-Tessi, Alexander R. A. Anderson
Systematics and symmetry in molecular phylogenetic modelling: perspectives from physics
Authors: Peter D Jarvis, Jeremy G Sumner
Phase transitions in evolutionary dynamics
Authors: Fernando Alcalde Cuesta, Pablo González Sequeiros, Álvaro Lozano Rojo
#MathOnco News
Two curious integrals
While not technically math oncology-related, this story is too intriguing not to share. Most of us have likely seen a `proof by induction' -- something clearly not possible here!
"When this fact was recently verified by a researcher using a computer algebra package, he concluded that there must be a ‘bug’ in the software. It is not a bug, though; this series of integrals really only results in π/2 up to a certain point, and then breaks down."
#MathOnco - Book of the month
Arrival of the Fittest
Andreas Wagner: "Natural selection can preserve innovations, but it cannot create them. Nature’s many innovations—some uncannily perfect—call for natural principles that accelerate life’s ability to innovate. Darwin’s theory of natural selection explains how useful adaptations are preserved over time. But the biggest mystery about evolution eluded him. As genetics pioneer, Hugo de Vries put it, “natural selection may explain the survival of the fittest, but it cannot explain the arrival of the fittest."
#MathOnco - Best of last month
Most clicked links of August
The Genetic/Non-genetic Duality of Drug ‘Resistance’ in Cancer
The Importance of Spatial Randomness in the Evolutionary Dynamics of Mutants
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