
Chemotactic cells working together balance sensing and signal modulation, showing how shared information speeds and stabilizes collective search for targets.
Optimality Theory of Stigmergic Collective Information Processing by Chemotactic Cells
Masaki Kato and Tetsuya J. Kobayashi
PRX Life 3, 043005 (2025)
David Soriano-Paños
PRX Life 3, 043001 (2025) - Published 2 October, 2025
An eco-evolutionary framework including evolution in infectiousness and antigenic features reveals that mildly infectious viruses might be more likely to become endemic that those with higher infectiousness.
Syed Yunus Ali, Aditya Saran, Ashok Prasad, Abhyudai Singh, and Dibyendu Das
PRX Life 3, 043002 (2025) - Published 7 October, 2025
The study examines noise contributions from random cell division times, extending beyond the effects of gene expression and partitioning noise, and presents the resulting analytical cyclo-stationary distributions of mRNA and protein counts.
Braden A. W. Brinkman
PRX Life 3, 043003 (2025) - Published 9 October, 2025
Scaling theories differ for spike response models of in vitro and in vivo circuits — representing different universality classes that both exhibit anomalous scaling at a critical balance of inhibition and excitation.
Caitlin Lienkaemper and Gabriel Koch Ocker
PRX Life 3, 043004 (2025) - Published 14 October, 2025
Networks of stochastically spiking neurons can be reduced to combinatorial threshold-linear networks, representing a new tool for analyzing neural networks with clustered connectivity.
Masaki Kato and Tetsuya J. Kobayashi
PRX Life 3, 043005 (2025) - Published 15 October, 2025
Chemotactic cells working together balance sensing and signal modulation, showing how shared information speeds and stabilizes collective search for targets.
Alex Chen Yi Zhang, Angelo Rosa, and Guido Sanguinetti
PRX Life 3, 043006 (2025) - Published 21 October, 2025
A graph-based generative model designed to capture long-range chromatin interaction patterns from Hi-C data reveals a latent structure of chromatin interactions in the GM12878 lymphoblastoid cell line that strongly align with known biological annotations.
Anton Grishechkin, Abhirup Mukherjee, and Omer Karin
PRX Life 3, 043007 (2025) - Published 23 October, 2025
Hierarchical cell identity emerges from the dynamic interplay between competition among enhancers for the recruitment of epigenetic readers and cooperation among enhancers in activating shared transcriptional programs.
Ali Tahaei, Romina Piscitello-Gómez, S. Suganthan, Greta Cwikla, Jana F. Fuhrmann, Natalie A. Dye, and Marko Popović
PRX Life 3, 043008 (2025) - Published 5 November, 2025
Inferring division-induced force dipoles from tissue strain fields quantifies mechanical forces of cell division and their impact on tissue mechanics.
Alex M. Plum and Mattia Serra
PRX Life 3, 043009 (2025) - Published 6 November, 2025
A mathematical framework reveals how morphogenesis mediates morphogen transport and compartmentalization, formalizes cell-cell interaction ranges in dynamic tissues, and provides new nondimensional numbers to assess when tissue deformation affects patterning.
Agnish Kumar Behera, Matthew Du, Uday K. Jagadisan, Srikanth Sastry, Madan Rao, and Suriyanarayanan Vaikuntanathan
PRX Life 3, 043010 (2025) - Published 12 November, 2025
Active persistent dynamics are shown to mimic some aspects of Hebbian unlearning — suggesting that nonequilibrium dynamics can provide an alternative way to improve associative recall in neural network models.
Julian B. Voits and Ulrich S. Schwarz
PRX Life 3, 043011 (2025) - Published 13 November, 2025
Combining concepts from stochastic dynamics, statistical physics and graph theory, a new theoretical study shows that large biochemical networks should have a quadratic Arrhenius plot, as seen in developmental processes.
Tianxiang Ma, Valeriia Grudtsyna, Robin V. Bölsterli, and Amin Doostmohammadi
PRX Life 3, 043012 (2025) - Published 18 November, 2025
Lagrangian coherent structures precede and drive long-term intercellular stress reorganization and are physically governed by the mechanical properties of intercellular junctions — revealing how cell motion can be used to infer biomechanical metrics.
Muhamet Ibrahimi and Matthias Merkel
PRX Life 3, 043013 (2025) - Published 19 November, 2025
Oriented tissue deformation (convergent extension) is unstable when signaling-gradient-controlled active stresses contract the tissue along the gradient direction, even for large diffusion, but it can be stable when active stresses extend the tissue in gradient direction.
M Sreepadmanabh, Saheli Dey, Sayan Kundu, Ashitha B. Arun, Sandhya P. Koushika, Shashi Thutupalli, Duncan Hewitt, and Tapomoy Bhattacharjee
PRX Life 3, 043014 (2025) - Published 24 November, 2025
Within viscoelastic 3D granular matrices, C. elegans transition from inefficient thrashing under low confinement to efficient crawling under high confinement - a response dictated by the worm’s physical interaction with its environment, without involving soft-touch mechanosensation.
Katherine Copenhagen, Matthew Black, and Joshua W. Shaevitz
PRX Life 3, 043015 (2025) - Published 1 December, 2025
Motility changes during starvation preserve nematic order but intensify defect-driven flows, promoting aggregation in Myxococcus xanthus.
Mirna Kramar, Lauritz Hahn, Aleksandra M. Walczak, Thierry Mora, and Mathieu Coppey
PRX Life 3, 043016 (2025) - Published 2 December, 2025
By quantifying the information transmitted from receptor to ERK, the study shows that individual cells can resolve graded stimuli, transmitting over 2 bits of information even with brief, sparse inputs.
Molly McCord and Jacob Notbohm
PRX Life 3, 043017 (2025) - Published 4 December, 2025
Negative effective viscosity in epithelial monolayers marks regions wherein cells expend more metabolic energy and move faster, hence quantifying the flow of energy in tissues.
Nuria H. Espejo, Alejandro Feito, Ignacio Sanchez-Burgos, Adiran Garaizar, Maria M. Conde, Antonio Rey, Eduardo Pedraza, Alejandro Castro, Rosana Collepardo-Guevara, Andres R. Tejedor, and Jorge R. Espinosa
PRX Life 3, 043018 (2025) - Published 11 December, 2025
While arginine-rich peptides accelerate the nucleation of inter-protein beta-sheet structures in TDP-43, RNA and HSP70 slow their emergence — revealing the importance of client biomolecules in the stability and aging kinetics of RNA binding proteins.
Rongbiao Tang, Feixiang Wang, Ke Li, and Yanan Fu
PRX Life 3, 043019 (2025) - Published 17 December, 2025
By combining ultrafast phase-contrast X-ray imaging and phase-contrast computed tomography imaging, this study details a way to simultaneously visualize nematode locomotion and obtain precise, whole-organism morphometric measurements.
Aurora Maurizio and Guglielmo Mazzola
PRX Life 3, 047001 (2025) - Published 30 October, 2025
This review article on quantum computing applications in genomics highlights its realistic potential for the field, theoretical limitations, and the conditions that a problem and an algorithm must satisfy to benefit from quantum speedup.
Somnath Paramanick, Arup Biswas, Harsh Soni, Arnab Pal, and Nitin Kumar
PRX Life 3, 049901 (2025) - Published 24 December, 2025