124 posts · 59,056 views
This is the blog of the evolutionary games group that launched as an extension of the earlier evolutionary game theory reading group at McGill University. It is organized by Artem Kaznatcheev and collaborates closely with Thomas R. Shultz‘s Laboratory for Natural and Simulated Cognition. We are primarily interested in the evolution of ethnocentrism, the interplay of evolution and cognition, and the effects of network topology on evolutionary simulations. Our reading concentrates on papers that apply nice analytic or computational models to questions in EGT. If you are interested in contributing to this project then feel free to email me!
Yesterday was the first day of the 4th Integrated Mathematical Oncology Workshop here at Moffitt. This year, it is run jointly with the Center for Infection Research in Cancer and is thus focused on the interaction of infection disease and cancer. This is a topic that I have not focused much attention on — except […]... Read more »
Kodaman, N., Pazos, A., Schneider, B.G., Piazuelo, M.B., Mera, R., Sobota, R.S., Sicinschi, L.A., Shaffer, C.L., Romero-Gallo, J., de Sablet, T.... (2014) Human and Helicobacter pylori coevolution shapes the risk of gastric disease. Proceedings of the National Academy of Sciences of the United States of America, 111(4), 1455-60. PMID: 24474772
By analogy, or maybe homage, to standard game theory, when we discuss the payoffs of an evolutionary game, we usually tell the story of two prototype agents representing their respective strategies meeting at random and interacting. For my stories of yarn, knitting needles, and clandestine meetings in the dark of night, I even give these […]... Read more »
Archetti, M. (2014) Evolutionary dynamics of the Warburg effect: glycolysis as a collective action problem among cancer cells. Journal of theoretical biology, 1-8. PMID: 24075895
As I was preparing some reading assignments, I realized that I don’t have a single resource available that covers the main ideas of the interface theory of perception, objective versus subjective rationality, and their relationship to evolutionary game theory. I wanted to correct this oversight and use it as opportunity to comment on the philosophy […]... Read more »
Kaznatcheev, A., Montrey, M., & Shultz, T.R. (2014) Evolving useful delusions: Subjectively rational selfishness leads to objectively irrational cooperation. Proceedings of the 36th annual conference of the cognitive science societ. arXiv: 1405.0041v1
When you were born, you probably had 270 bones in your body. Unless you’ve experienced some very drastic traumas, and assuming that you are fully grown, then you probably have 206 bones now. Much like the number and types of internal organs, we can call this question of science solved. Unfortunately, it isn’t always helpful […]... Read more »
Traulsen, A., Pacheco, J., & Dingli, D. (2010) Reproductive fitness advantage of BCR–ABL expressing leukemia cells. Cancer Letters, 294(1), 43-48. DOI: 10.1016/j.canlet.2010.01.020
One of my favorite parts of mathematical modeling is the opportunities it provides to carefully explore metaphors and analogies between disciplines. The connection most carefully explored at the MBI Workshop on the Ecology and Evolution of Cancer was, as you can guess from the name, between ecology and oncology. Looking at cancer from the perspective […]... Read more »
Potter, J. (2007) Morphogens, morphostats, microarchitecture and malignancy. Nature Reviews Cancer, 7(6), 464-474. DOI: 10.1038/nrc2146
George Lakoff and Mark Johnson’s Metaphors we live by is a classic, that has had a huge influence on parts of linguistics and cognitive science, and some influence — although less so, in my opinion — on philosophy. It is structured around the thought that “[m]etaphor is one of our most important tools for trying […]... Read more »
Narayanan, S. (1997) Embodiment in language understanding: Sensory-motor representations for metaphoric reasoning about event descriptions. PhD Thesis (University of California, Berkeley). info:/
One of the exciting things about mathematical oncology is that thinking about cancer often forces me to leave my comfortable arm-chair and look at some actually data. No matter how much I advocate for the merits of heuristic modeling, when it comes to cancer, data-agnostic models take second stage to data-rich modeling. This close relationship […]... Read more »
Gallaher, J., & Anderson, A.R. (2013) Evolution of intratumoral phenotypic heterogeneity: the role of trait inheritance. Interface Focus, 3(4), 20130016. arXiv: 1305.0524v1
On Saturday, I arrived in Columbus, Ohio for the the MBI Workshop on the Ecology and Evolution of Cancer. Today, our second day started. The meeting is an exciting combination of biology-minded mathematicians and computer scientists, and math-friendly biologist and clinicians. As is typical of workshops, the speakers of the first day had an agenda […]... Read more »
Baker AM, Cereser B, Melton S, Fletcher AG, Rodriguez-Justo M, Tadrous PJ, Humphries A, Elia G, McDonald SA, Wright NA.... (2014) Quantification of crypt and stem cell evolution in the normal and neoplastic human colon. Cell reports, 8(4), 940-7. PMID: 25127143
One of the exciting things in reading philosophy, its history in particular, is experiencing the tension between different schools of thought. This excitement turns to beauty if a clear synthesis emerges to reconcile the conflicting ideas. In the middle to late 18th century, as the Age of Enlightenment was giving way to the Romantic era, […]... Read more »
Post, E.L. (1936) Finite combinatory processes -- formulation 1. Journal of Symbolic Logic, 1(3), 103-105. info:/
In 1936, two years after Karl Popper published the first German version of The Logic of Scientific Discovery and introduced falsifiability; Alonzo Church, Alan Turing, and Emil Post each published independent papers on the Entscheidungsproblem and introducing the lambda calculus, Turing machines, and Post-Turing machines as mathematical models of computation. The years after saw many […]... Read more »
As you can guess from the name, evolutionary game theory (EGT) traces its roots to economics and evolutionary biology. Both of the progenitor fields assume it impossible, or unreasonably difficult, to observe the internal representations, beliefs, and preferences of the agents they model, and thus adopt a largely behaviorist view. My colleagues and I, however, […]... Read more »
Kaznatcheev, A., Montrey, M., & Shultz, T.R. (2014) Evolving useful delusions: Subjectively rational selfishness leads to objectively irrational cooperation. Proceedings of the 36th annual conference of the cognitive science society. arXiv: 1405.0041v1
A large chunk of machine learning (although not all of it) is concerned with predictive modeling, usually in the form of designing an algorithm that takes in some data set and returns an algorithm (or sometimes, a description of an algorithm) for making predictions based on future data. In terminology more friendly to the philosophy […]... Read more »
Bailey, D., Borwein, J., de Prado, M.L., & Zhu, Q. (2014) Pseudo-Mathematics and Financial Charlatanism: The Effects of Backtest Overfitting on Out-of-Sample Performance. Notices of the American Mathematical Society, 61(5), 458. DOI: 10.1090/noti1105
Much of my undergrad was spent studying physics, and although I still think that a physics background is great for a theorists in any field, there are some downsides. For example, I used to make jokes like: “soft isn’t the opposite of hard sciences, easy is.” Thankfully, over the years I have started to slowly […]... Read more »
Lazer, D., Kennedy, R., King, G., & Vespignani, A. (2014) Big data. The parable of Google Flu: traps in big data analysis. Science, 343(6176), 1203-1205. PMID: 24626916
In 1936, Alonzo Church, Alan Turing, and Emil Post each published independent papers on the Entscheidungsproblem and introducing the lambda calculus, Turing machines, and Post-Turing machines as mathematical models of computation. A myriad of other models followed, many of them taking seemingly unrelated approaches to the computable: algebraic, combinatorial, linguistic, logical, mechanistic, etc. Of course, […]... Read more »
Dershowitz, N., & Gurevich, Y. (2008) A natural axiomatization of computability and proof of Church's Thesis. Bulletin of Symbolic Logic, 14(3), 299-350. DOI: 10.2178/bsl/1231081370
The workshop on computational theories of evolution started off on Monday, March 17th with Leslie Valiant — one of the organizers — introducing his model of evolvability (Valiant, 2009). This original name was meant to capture what type of complexity can be achieved through evolution. Unfortunately — especially at this workshop — evolvability already had […]... Read more »
If you look at your typical computer science department’s faculty list, you will notice the theorists are a minority. Sometimes they are further subdivided by being culled off into mathematics departments. As such, any institute that unites and strengthens theorists is a good development. That was my first reason for excitement two years ago when […]... Read more »
Angelino, E., & Kanade, V. (2014) Attribute-efficient evolvability of linear functions. Proceedings of the 5th conference on Innovations in Theoretical Computer Science, 287-300. DOI: 10.1145/2554797.2554824
As Philip Gerlee pointed out, mathematical oncologists has contributed two main focuses to cancer research. In following Nowell (1976), they’ve stressed the importance of viewing cancer progression as an evolutionary process, and — of less clear-cut origin — recognizing the heterogeneity of tumours. Hence, it would seem appropriate that mathematical oncologists might enjoy Feyerabend’s philosophy: […]... Read more »
I have an awkward relationship with mathematical oncology, mostly because oncology has an awkward relationship with math. Although I was vaguely familiar that evolutionary game theory (EGT) could be used in cancer research, mostly through Axelrod et al. (2006), I never planned to work on cancer. I wasn’t eager to enter the field because I […]... Read more »
Enzymes play an essential role in life. Without them, the translation of genetic material into proteins — the building blocks of all phenotypic traits — would be impossible. That fact, however, poses a problem for anyone trying to understand how life appeared in the hot, chaotic, bustling molecular “soup” from which it sparked into existence […]... Read more »
Can we describe reality? As a general philosophical question, I could spend all day discussing it and never arrive at a reasonable answer. However, if we restrict to the sort of models used in theoretical biology, especially to the heuristic models that dominate the field, then I think it is relatively reasonable to conclude that […]... Read more »
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