Biological Physics

Authors and titles for physics.bio-ph in Mar 2024, skipping first 75

[76]  arXiv:2403.01078 (cross-list from cs.LG) [pdf, other]

Title: $Γ$-VAE: Curvature regularized variational autoencoders for uncovering emergent low dimensional geometric structure in high dimensional data

Authors: Jason Z. Kim, Nicolas Perrin-Gilbert, Erkan Narmanli, Paul Klein, Christopher R. Myers, Itai Cohen, Joshua J. Waterfall, James P. Sethna

Comments: 8 pages, 4 figures

Subjects: Machine Learning (cs.LG); Artificial Intelligence (cs.AI); Biological Physics (physics.bio-ph); Genomics (q-bio.GN)

[77]  arXiv:2403.02050 (cross-list from q-bio.QM) [pdf, other]

Title: Piezoelectricity and flexoelectricity in biological cells: The role of cell structure and organelles

Authors: Akepogu Venkateshwarlu, Akshayveer, Sundeep Singh, Roderick Melnik

Subjects: Quantitative Methods (q-bio.QM); Biological Physics (physics.bio-ph)

[78]  arXiv:2403.02216 (cross-list from cond-mat.stat-mech) [pdf, other]

Title: Optimizing the Energetics of the Finite-time Driving of Field Theories

Authors: Atul Tanaji Mohite

Subjects: Statistical Mechanics (cond-mat.stat-mech); Biological Physics (physics.bio-ph)

[79]  arXiv:2403.02299 (cross-list from cond-mat.soft) [pdf, other]

Title: Effective extensional-torsional elasticity and dynamics of helical filaments under distributed loads

Authors: Michael Gomez, Eric Lauga

Comments: 37 pages, 8 figures

Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph)

[80]  arXiv:2403.02359 (cross-list from q-bio.QM) [pdf, other]

Title: Fluid ejections in nature

Authors: Elio J. Challita, Pankaj Rohilla, M. Saad Bhamla

Comments: 30 pages, 9 figures. Paper accepted and scheduled for publication in Annual Reviews. This is not the final version

Subjects: Quantitative Methods (q-bio.QM); Biological Physics (physics.bio-ph)

[81]  arXiv:2403.02885 (cross-list from cond-mat.soft) [pdf, other]

Title: Numerical studies of triangulated vesicles with anisotropic membrane inclusions

Authors: Yoav Ravid, Samo Penič, Nir Gov, Veronika Kralj-Iglič, Aleš Iglič, Mitja Drab

Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph)

[82]  arXiv:2403.02917 (cross-list from cs.RO) [pdf, ps, other]

Title: A Miniaturized Device for Ultrafast On-demand Drug Release based on a Gigahertz Ultrasonic Resonator

Authors: Yangchao Zhou, Moonkwang Jeong, Meng Zhang, Xuexin Duan, Tian Qiu

Comments: 19 pages, 6 figures, 1 table

Journal-ref: \c{opyright} 2024 The Authors. Advanced Engineering Materials published by Wiley-VCH GmbH

Subjects: Robotics (cs.RO); Biological Physics (physics.bio-ph)

[83]  arXiv:2403.03079 (cross-list from cond-mat.soft) [pdf, ps, other]

Title: Topological balance of cell distributions in plane monolayers

Authors: Daria S. Roshal, Kirill K. Fedorenko, Marianne Martin, Stephen Baghdiguian, Sergei B. Rochal

Comments: 7 pages, 4 figures, submitted to Journal of Physics: Condensed Matter

Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph)

[84]  arXiv:2403.03403 (cross-list from astro-ph.EP) [pdf, other]

Title: How habitable are M-dwarf Exoplanets? Modeling surface conditions and exploring the role of melanins in the survival of Aspergillus niger spores under exoplanet-like radiation

Authors: Afonso Mota, Stella Koch, Daniel Matthiae, Nuno Santos, Marta Cortesão

Comments: 25 pages, 13 figures, 14 equations, 4 tables. Submitted to Astrobiology

Subjects: Earth and Planetary Astrophysics (astro-ph.EP); Biological Physics (physics.bio-ph)

[85]  arXiv:2403.03889 (cross-list from math.DS) [pdf, ps, other]

Title: Non-reflective traveling waves in finite thin beams: A parametric study

Authors: Amirhossein Omidi Soroor, Pablo A. Tarazaga

Subjects: Dynamical Systems (math.DS); Biological Physics (physics.bio-ph)

[86]  arXiv:2403.04027 (cross-list from q-bio.QM) [pdf, ps, other]

Title: High throughput spectroscopy of pL droplets

Authors: Marc Sulliger, Jaime Ortega Arroyo, Romain Quidant

Subjects: Quantitative Methods (q-bio.QM); Biological Physics (physics.bio-ph)

[87]  arXiv:2403.04709 (cross-list from cond-mat.stat-mech) [pdf, other]

Title: Tuning transduction from hidden observables to optimize information harvesting

Authors: Giorgio Nicoletti, Daniel Maria Busiello

Subjects: Statistical Mechanics (cond-mat.stat-mech); Biological Physics (physics.bio-ph)

[88]  arXiv:2403.04949 (cross-list from cond-mat.soft) [pdf, other]

Title: Electric field of DNA in solution: who is in charge?

Authors: Jonathan G. Hedley, Kush Coshic, Aleksei Aksimentiev, Alexei A. Kornyshev

Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph); Chemical Physics (physics.chem-ph)

[89]  arXiv:2403.05253 (cross-list from cond-mat.soft) [pdf, other]

Title: Non-additivity in many-body interactions between membrane-deforming spheres increases disorder

Authors: Ali Azadbakht, Thomas R. Weikl, Daniela J. Kraft

Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph)

[90]  arXiv:2403.05665 (cross-list from cond-mat.stat-mech) [pdf, other]

Title: Non Equilibrium Transitions in a Polymer Replication Ensemble

Authors: Arthur Genthon, Carl D. Modes, Frank Jülicher, Stephan W. Grill

Subjects: Statistical Mechanics (cond-mat.stat-mech); Biological Physics (physics.bio-ph)

[91]  arXiv:2403.06666 (cross-list from cond-mat.soft) [pdf, other]

Title: Beyond Pairwise: Higher-order physical interactions affect phase separation in multi-component liquids

Authors: Chengjie Luo, Yicheng Qiang, David Zwicker

Comments: 12 pages, 8 figures, and Appendix

Subjects: Soft Condensed Matter (cond-mat.soft); Statistical Mechanics (cond-mat.stat-mech); Biological Physics (physics.bio-ph)

[92]  arXiv:2403.06799 (cross-list from cond-mat.soft) [pdf, other]

Title: A perspective on active glassy dynamics in biological systems

Authors: Souvik Sadhukhan, Subhodeep Dey, Smarajit Karmakar, Saroj Kumar Nandi

Comments: 25 pages, 13 figures

Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph)

[93]  arXiv:2403.06875 (cross-list from cond-mat.stat-mech) [pdf, other]

Title: Ising model with non-reciprocal interactions

Authors: Agney K. Rajeev, A. V. Anil Kumar

Subjects: Statistical Mechanics (cond-mat.stat-mech); Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph)

[94]  arXiv:2403.06981 (cross-list from nlin.AO) [pdf, other]

Title: Towards a Bayesian mechanics of metacognitive particles: A commentary on "Path integrals, particular kinds, and strange things" by Friston, Da Costa, Sakthivadivel, Heins, Pavliotis, Ramstead, and Parr

Authors: Lancelot Da Costa, Lars Sandved-Smith

Comments: Comment on arXiv:2210.12761 . 2 pages, 1 figure

Subjects: Adaptation and Self-Organizing Systems (nlin.AO); Biological Physics (physics.bio-ph); Neurons and Cognition (q-bio.NC)

[95]  arXiv:2403.07612 (cross-list from q-bio.CB) [pdf, other]

Title: Minimal cellular automaton model with heterogeneous cell sizes predicts epithelial colony growth

Authors: Steffen Lange, Jannik Schmied, Paul Willam, Anja Voss-Böhme

Comments: 15 pages, 15 figures

Subjects: Cell Behavior (q-bio.CB); Cellular Automata and Lattice Gases (nlin.CG); Biological Physics (physics.bio-ph); Data Analysis, Statistics and Probability (physics.data-an); Tissues and Organs (q-bio.TO)

[96]  arXiv:2403.07626 (cross-list from cond-mat.stat-mech) [pdf, other]

Title: Trade-offs and thermodynamics of energy-relay proofreading

Authors: Jonas Berx, Karel Proesmans

Comments: 13 pages, 10 figures

Subjects: Statistical Mechanics (cond-mat.stat-mech); Biological Physics (physics.bio-ph)

[97]  arXiv:2403.07819 (cross-list from cond-mat.mes-hall) [pdf, other]

Title: NPCoronaPredict: A computational pipeline for the prediction of the nanoparticle-biomolecule corona

Authors: Ian Rouse, David Power, Julia Subbotina, Vladimir Lobaskin

Comments: 52 double-spaced pages and 17 figures (main text), 13 pages and 1 figure (supporting material)

Subjects: Mesoscale and Nanoscale Physics (cond-mat.mes-hall); Biological Physics (physics.bio-ph); Computational Physics (physics.comp-ph)

[98]  arXiv:2403.08097 (cross-list from cond-mat.soft) [pdf, other]

Title: EXCOGITO, an extensible coarse-graining toolbox for the investigation of biomolecules by means of low-resolution representation

Authors: Marco Giulini, Raffaele Fiorentini, Luca Tubiana, Raffaello Potestio, Roberto Menichetti

Subjects: Soft Condensed Matter (cond-mat.soft); Statistical Mechanics (cond-mat.stat-mech); Biological Physics (physics.bio-ph)

[99]  arXiv:2403.08437 (cross-list from cond-mat.soft) [pdf, other]

Title: How motility drives the glassy dynamics in confluent epithelial monolayers?

Authors: Souvik Sadhukhan, Manoj Kumar Nandi, Satyam Pandey, Matteo Paoluzzi, Chandan Dasgupta, Nir Gov, Saroj Kumar Nandi

Comments: 15 pages, 6 figures

Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph)

[100]  arXiv:2403.08466 (cross-list from cond-mat.soft) [pdf, other]

Title: Evidence of robust, universal conformal invariance in living biological matter

Authors: Benjamin H. Andersen, Francisco M. R. Safara, Valeriia Grudtsyna, Oliver J. Meacock, Simon G. Andersen, William M. Durham, Nuno A. M. Araujo, Amin Doostmohammadi

Subjects: Soft Condensed Matter (cond-mat.soft); Biological Physics (physics.bio-ph)