Populations and Evolution

Authors and titles for q-bio.PE in Nov 2022

[1]  arXiv:2211.00581 [pdf, ps, other]

Title: Evolutionary Innovation by Polyploidy

Authors: Tetsuhiro S. Hatakeyama, Ryudo Ohbayashi

Comments: 10 pages, 5 figures, 1 tables

Subjects: Populations and Evolution (q-bio.PE); Biological Physics (physics.bio-ph)

[2]  arXiv:2211.00605 [pdf, other]

Title: Verifying a stochastic model for the spread of a SARS-CoV-2-like infection: opportunities and limitations

Authors: Marco Roveri, Franc Ivankovic, Luigi Palopoli, Daniele Fontanelli

Comments: Accepted for pubblication in AIxIA 2022

Subjects: Populations and Evolution (q-bio.PE); Formal Languages and Automata Theory (cs.FL); Physics and Society (physics.soc-ph)

[3]  arXiv:2211.00712 [pdf, other]

Title: Detectability of Varied Hybridization Scenarios using Genome-Scale Hybrid Detection Methods

Authors: Marianne Bjorner, Erin K. Molloy, Colin N. Dewey, Claudia Solis-Lemus

Subjects: Populations and Evolution (q-bio.PE)

[4]  arXiv:2211.02168 [pdf, other]

Title: Automatic differentiation is no panacea for phylogenetic gradient computation

Authors: Mathieu Fourment, Christiaan J. Swanepoel, Jared G. Galloway, Xiang Ji, Karthik Gangavarapu, Marc A. Suchard, Frederick A. Matsen IV

Comments: 17 pages and 2 figures in main text, plus supplementary materials

Subjects: Populations and Evolution (q-bio.PE)

[5]  arXiv:2211.02358 [pdf, other]

Title: An approach for benchmarking the numerical solutions of stochastic compartmental models

Authors: Alison C Hale, Christopher P Jewell

Comments: 21 pages 3 figures

Subjects: Populations and Evolution (q-bio.PE); Applications (stat.AP)

[6]  arXiv:2211.03312 [pdf, other]

Title: Optimal intercellular competition in senescence and cancer

Authors: Thomas C.T. Michaels, L. Mahadevan

Comments: Some minor typographical errors fixed

Subjects: Populations and Evolution (q-bio.PE)

[7]  arXiv:2211.03515 [pdf, other]

Title: The infinitesimal model with dominance

Authors: N.H. Barton, A.M. Etheridge, A. Véber

Comments: 68 pages, 9 figures. To appear in Genetics

Subjects: Populations and Evolution (q-bio.PE); Probability (math.PR)

[8]  arXiv:2211.03632 [pdf, other]

Title: On the enumeration of leaf-labelled increasing trees with arbitrary node-degree

Authors: Johannes Wirtz

Subjects: Populations and Evolution (q-bio.PE); Combinatorics (math.CO)

[9]  arXiv:2211.04283 [pdf, other]

Title: Modified SIS model applied to a Zombie apocalypse with terminators

Authors: Gabriel Vilela de Sousa, Ulisses Ferreira Kaneko, Paulo Freitas Gomes

Comments: 8 pages, in Portuguese, 10 figures, conference paper

Subjects: Populations and Evolution (q-bio.PE); Physics and Society (physics.soc-ph)

[10]  arXiv:2211.04730 [pdf, other]

Title: Inferring the ecology of north-Pacific albacore tuna from catch-and-effort data

Authors: Hirotaka Ijima, Carolina Minte-Vera, Yi-Jay Chang, Daisuke Ochi, Yuichi Tsuda, Marko Jusup

Comments: 9 pages, 4 figures

Subjects: Populations and Evolution (q-bio.PE); Quantitative Methods (q-bio.QM)

[11]  arXiv:2211.04843 [pdf, other]

Title: SPRINT: A fast, new software tool for reconstructing the evolutionary past of polyploid datasets

Authors: Liam J. Maher, Taoyang Wu, Katharina T. Huber

Comments: 4 pages, 2 figures

Subjects: Populations and Evolution (q-bio.PE)

[12]  arXiv:2211.05032 [pdf, other]

Title: Evolution with recombination as a Metropolis-Hastings sampling procedure

Authors: Jenny M. Poulton, Lee Altenberg, Chris Watkins

Subjects: Populations and Evolution (q-bio.PE)

[13]  arXiv:2211.05220 [pdf, other]

Title: TreeFlow: probabilistic programming and automatic differentiation for phylogenetics

Authors: Christiaan Swanepoel, Mathieu Fourment, Xiang Ji, Hassan Nasif, Marc A Suchard, Frederick A Matsen IV, Alexei Drummond

Comments: 34 pages, 8 figures

Subjects: Populations and Evolution (q-bio.PE); Computation (stat.CO)

[14]  arXiv:2211.05469 [pdf, other]

Title: Estimating cross-border mobility from the difference in peak-timing: A case study in Poland-Germany border regions

Authors: Abhishek Senapati, Adam Mertel, Weronika Schlechte-Welnicz, Justin M. Calabrese

Comments: Added Reference (Abdussalam et al. (2022) in Section 3

Subjects: Populations and Evolution (q-bio.PE); Physics and Society (physics.soc-ph)

[15]  arXiv:2211.05653 [pdf, other]

Title: Unifying the communicable disease spreading paradigm with Gompertzian growth

Authors: Matz A. Haugen, Dorothea Gilbert

Comments: 17 pages, 3 figures

Subjects: Populations and Evolution (q-bio.PE); Physics and Society (physics.soc-ph)

[16]  arXiv:2211.08076 [pdf, ps, other]

Title: Association of vaccine-induced or hybrid immunity with COVID-19-related mortality during the Omicron wave -- a retrospective observational study in elderly Bavarians

Authors: Maximilian Weigert (1), Andreas Beyerlein (2), Katharina Katz (2), Rickmer Schulte (1), Wolfgang Hartl (3), Helmut Küchenhoff (1) ((1) Statistical Consulting Unit StaBLab, Department of Statistics, Ludwig-Maximilians-Universität Munich, Germany, (2) Bavarian Health and Food Safety Authority, Oberschleißheim, Germany, (3) Division of Surgical Critical Care, Department of General, Visceral, and Transplantation Surgery, University Medical Center, Campus Grosshadern, Ludwig-Maximilians-Universität Munich, Germany)

Subjects: Populations and Evolution (q-bio.PE)

[17]  arXiv:2211.08208 [pdf, other]

Title: Variations of the SIR model for COVID-19 evolution

Authors: Nana Cabo Bizet, Jonanthan Hidalgo Núñez, Gil Estefano Rodrígez Rivera

Comments: 10 pages, 28 figures

Subjects: Populations and Evolution (q-bio.PE)

[18]  arXiv:2211.08503 [pdf, other]

Title: Nonlocal Mechanistic Models in Ecology: Numerical Methods and Parameter Inferencing

Authors: Erin Ellefsen, Nancy Rodriguez

Comments: 29 pages, 21 figures

Subjects: Populations and Evolution (q-bio.PE)

[19]  arXiv:2211.08516 [pdf, other]

Title: Phenotype Search Trajectory Networks for Linear Genetic Programming

Authors: Ting Hu, Gabriela Ochoa, Wolfgang Banzhaf

Subjects: Populations and Evolution (q-bio.PE); Artificial Intelligence (cs.AI)

[20]  arXiv:2211.08522 [pdf, other]

Title: The scaling of goals via homeostasis: an evolutionary simulation, experiment and analysis

Authors: Leo Pio-Lopez, Johanna Bischof, Jennifer V. LaPalme, Michael Levin

Comments: 27 pages, 11 Figures, 2 Algorithms

Subjects: Populations and Evolution (q-bio.PE); Multiagent Systems (cs.MA); Neural and Evolutionary Computing (cs.NE); Tissues and Organs (q-bio.TO)

[21]  arXiv:2211.08558 [pdf, other]

Title: Environmental toxicity influences disease spread in consumer population

Authors: Arnab Chattopadhyay, Swarnendu Banerjee, Amit Samadder, Sabyasachi Bhattacharya

Subjects: Populations and Evolution (q-bio.PE)

[22]  arXiv:2211.08673 [pdf, other]

Title: Correlation of viral loads in disease transmission chains could bias early estimates of the reproduction number

Authors: Thomas Harris, Nicholas Geard, Cameron Zachreson

Subjects: Populations and Evolution (q-bio.PE)

[23]  arXiv:2211.08797 [pdf, ps, other]

Title: Assessing potential insights of an imperfect testing strategy: Parameter estimation and practical identifiability using early COVID-19 data in India

Authors: Sarita Bugalia, Jai Prakash Tripathi

Subjects: Populations and Evolution (q-bio.PE); Physics and Society (physics.soc-ph)

[24]  arXiv:2211.09005 [pdf, other]

Title: Endemic Oscillations for SARS-CoV-2 Omicron -- A SIRS model analysis

Authors: Florian Nill

Comments: 19 pages, 9 figures

Journal-ref: Chaos, Solitons and Fractals 173 (2023) 113678

Subjects: Populations and Evolution (q-bio.PE); Dynamical Systems (math.DS); Physics and Society (physics.soc-ph)

[25]  arXiv:2211.09010 [pdf, other]

Title: Modeling Insights from COVID-19 Incidence Data: Part I -- Comparing COVID-19 Cases Between Different-Sized Populations

Authors: Ryan Wilkinson, Marcus Roper

Subjects: Populations and Evolution (q-bio.PE)