Accepted Papers for PRX Life http://journals.aps.org/prxlife/ Accepted Papers for PRX Life hourly 1 2026-09-03T06:16:40+00:00 rss@aps.org assocpub@aps.org 2026-09-03T06:16:40+00:00 en Copyright © 2026 the American Physical Society. Personal use only, all commercial or other reuse prohibited Copyright © 2026 the American Physical Society assocpub@aps.org <span>Can we extract physics-like energies from generative protein diffusion Models?</span> http://journals.aps.org/prxlife/accepted/d6074I7eZ681740020e55c339eed9d534e7d28dae Author(s): Sudeep Sarma, Harrison Truscott, Da Xu, Kendall Reid, Lee-Shin Chu, Jacky Chen, and Jeffrey J. Gray<br/><span>Diffusion models have emerged as the state-of-the-art method in generative artificial intelligence (AI) and have shown great success in image synthesis, video generation, molecular design, and protein structure prediction. For biophysical problems, such as protein folding and association, a fundamen…</span><br/>[PRX Life] Published Wed Sep 02, 2026 Author(s): Sudeep Sarma, Harrison Truscott, Da Xu, Kendall Reid, Lee-Shin Chu, Jacky Chen, and Jeffrey J. Gray

Diffusion models have emerged as the state-of-the-art method in generative artificial intelligence (AI) and have shown great success in image synthesis, video generation, molecular design, and protein structure prediction. For biophysical problems, such as protein folding and association, a fundamen…

[PRX Life] Published Wed Sep 02, 2026

]]> <span>Can we extract physics-like energies from generative protein diffusion Models?</span> Sudeep Sarma, Harrison Truscott, Da Xu, Kendall Reid, Lee-Shin Chu, Jacky Chen, and Jeffrey J. Gray 2026-09-02T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/m7qr-gnjc 10.1103/m7qr-gnjc PRX Life 2026-09-02T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/d6074I7eZ681740020e55c339eed9d534e7d28dae Research Articles Research Articles <span>Capillary bundling of microtubules by condensates</span> http://journals.aps.org/prxlife/accepted/1c07eI06A8d1cb0b601c2b1003cde76e713a834d6 Author(s): Bernardo Gouveia, J. Pedro de Souza, Venecia A. Valdez, Joshua W. Shaevitz, Howard A. Stone, and Sabine Petry<br/><span>The cytoskeleton organizes the cellular interior using cytoskeletal filaments that rely on bundling, usually executed by stable and ordered crosslinking proteins. Bundling often requires protein complexes with at least two defined microtubule binding regions, as present in many molecular motors. Her…</span><br/>[PRX Life] Published Wed Sep 02, 2026 Author(s): Bernardo Gouveia, J. Pedro de Souza, Venecia A. Valdez, Joshua W. Shaevitz, Howard A. Stone, and Sabine Petry

The cytoskeleton organizes the cellular interior using cytoskeletal filaments that rely on bundling, usually executed by stable and ordered crosslinking proteins. Bundling often requires protein complexes with at least two defined microtubule binding regions, as present in many molecular motors. Her…

[PRX Life] Published Wed Sep 02, 2026

]]> <span>Capillary bundling of microtubules by condensates</span> Bernardo Gouveia, J. Pedro de Souza, Venecia A. Valdez, Joshua W. Shaevitz, Howard A. Stone, and Sabine Petry 2026-09-02T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/5flw-5xzh 10.1103/5flw-5xzh PRX Life 2026-09-02T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/1c07eI06A8d1cb0b601c2b1003cde76e713a834d6 Research Articles Research Articles <span>Evolutionary learning of microbial populations in partially predictable environments</span> http://journals.aps.org/prxlife/accepted/59073I81D881120ea08635d41c97fb115ebef4315 Author(s): Roaa M. Y. Omer, Onofrio Mazzarisi, Martina Dal Bello, and Jacopo Grilli<br/><span>Populations evolving in fluctuating environments face the fundamental challenge of balancing adaptation to current conditions against preparation for uncertain futures. Here, we study theoretically microbial evolution in partially predictable environments using proteome allocation models that captur…</span><br/>[PRX Life] Published Mon Aug 24, 2026 Author(s): Roaa M. Y. Omer, Onofrio Mazzarisi, Martina Dal Bello, and Jacopo Grilli

Populations evolving in fluctuating environments face the fundamental challenge of balancing adaptation to current conditions against preparation for uncertain futures. Here, we study theoretically microbial evolution in partially predictable environments using proteome allocation models that captur…

[PRX Life] Published Mon Aug 24, 2026

]]> <span>Evolutionary learning of microbial populations in partially predictable environments</span> Roaa M. Y. Omer, Onofrio Mazzarisi, Martina Dal Bello, and Jacopo Grilli 2026-08-24T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/rqj5-pqvt 10.1103/rqj5-pqvt PRX Life 2026-08-24T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/59073I81D881120ea08635d41c97fb115ebef4315 Research Articles Research Articles <span>Decoding social integration in schooling fish using closed-loop real-virtual interactions</span> http://journals.aps.org/prxlife/accepted/86079IfaD731e80d504c41a13b0aef09621bb01d2 Author(s): Zhen Kang, Ramón Escobedo, Maud Combe, Stéphane Sanchez, Clément Sire, and Guy Theraulaz<br/><span>Collective motion in animal groups emerges from local interactions, yet how individuals select and integrate social information remains poorly understood. In schooling fish, inferring which neighbors drive an individual’s behavior at any given moment is extremely challenging because the analysis of …</span><br/>[PRX Life] Published Tue Aug 18, 2026 Author(s): Zhen Kang, Ramón Escobedo, Maud Combe, Stéphane Sanchez, Clément Sire, and Guy Theraulaz

Collective motion in animal groups emerges from local interactions, yet how individuals select and integrate social information remains poorly understood. In schooling fish, inferring which neighbors drive an individual’s behavior at any given moment is extremely challenging because the analysis of …

[PRX Life] Published Tue Aug 18, 2026

]]> <span>Decoding social integration in schooling fish using closed-loop real-virtual interactions</span> Zhen Kang, Ramón Escobedo, Maud Combe, Stéphane Sanchez, Clément Sire, and Guy Theraulaz 2026-08-18T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/18qw-sfyd 10.1103/18qw-sfyd PRX Life 2026-08-18T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/86079IfaD731e80d504c41a13b0aef09621bb01d2 Research Articles Research Articles <span>Volatile but persistent coexistence of self-compatibility and self-incompatibility in plants</span> http://journals.aps.org/prxlife/accepted/e207cI80Zfc1440420683f13844335b0cd89c8cc7 Author(s): Amit Jangid, Ohad Noy Feldheim, and Tamar Friedlander<br/><span>Plants employ diverse mating strategies, including self- and cross-fertilization or their combination. Despite the ubiquity of mixed mating – the use of both self- and cross-fertilization within the same population – its evolutionary origins and dynamic stability remain elusive. Here, we study self-…</span><br/>[PRX Life] Published Fri Aug 14, 2026 Author(s): Amit Jangid, Ohad Noy Feldheim, and Tamar Friedlander

Plants employ diverse mating strategies, including self- and cross-fertilization or their combination. Despite the ubiquity of mixed mating – the use of both self- and cross-fertilization within the same population – its evolutionary origins and dynamic stability remain elusive. Here, we study self-…

[PRX Life] Published Fri Aug 14, 2026

]]> <span>Volatile but persistent coexistence of self-compatibility and self-incompatibility in plants</span> Amit Jangid, Ohad Noy Feldheim, and Tamar Friedlander 2026-08-14T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/lc75-8bf3 10.1103/lc75-8bf3 PRX Life 2026-08-14T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/e207cI80Zfc1440420683f13844335b0cd89c8cc7 Research Articles Research Articles <span>Optimal maturation protocols for high-affinity antibody targets: A path-integral approach</span> http://journals.aps.org/prxlife/accepted/e5071I4aZ8715b08808d6287529562263872fb085 Author(s): Marian Huot, Marco Molari, Rémi Monasson, and Simona Cocco<br/><span>Affinity maturation is a stochastic evolutionary process allowing the adaptive immune system to produce B-cells capable of recognizing antigenic molecules. The quality of the process, quantified by the affinity of the immune cells to the antigen, is controlled by the time-course of the antigen conce…</span><br/>[PRX Life] Published Fri Aug 14, 2026 Author(s): Marian Huot, Marco Molari, Rémi Monasson, and Simona Cocco

Affinity maturation is a stochastic evolutionary process allowing the adaptive immune system to produce B-cells capable of recognizing antigenic molecules. The quality of the process, quantified by the affinity of the immune cells to the antigen, is controlled by the time-course of the antigen conce…

[PRX Life] Published Fri Aug 14, 2026

]]> <span>Optimal maturation protocols for high-affinity antibody targets: A path-integral approach</span> Marian Huot, Marco Molari, Rémi Monasson, and Simona Cocco 2026-08-14T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/79gx-ctyk 10.1103/79gx-ctyk PRX Life 2026-08-14T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/e5071I4aZ8715b08808d6287529562263872fb085 Research Articles Research Articles <span>Enzymatically driven remodeling of growth kinetics and internal structure in biomolecular condensates</span> http://journals.aps.org/prxlife/accepted/61079I7fZ3b12506b05061a91cd732b98ab0be12d Author(s): Tamizhmalar Sundararajan, Matteo Boccalini, Roméo Suss, Sandrine Mariot, Emerson R. Da Silva, Fernando C. Giacomelli, Austin Hubley, Theyencheri Narayanan, Alessandro Barducci, and Guillaume Tresset<br/><span>Living cells exhibit a complex organization comprising numerous compartments, among which are RNA- and protein-rich membraneless, liquid-like organelles known as biomolecular condensates. Energy-consuming processes regulate their formation and dissolution, with (de-)phosphorylation by specific enzym…</span><br/>[PRX Life] Published Fri Aug 07, 2026 Author(s): Tamizhmalar Sundararajan, Matteo Boccalini, Roméo Suss, Sandrine Mariot, Emerson R. Da Silva, Fernando C. Giacomelli, Austin Hubley, Theyencheri Narayanan, Alessandro Barducci, and Guillaume Tresset

Living cells exhibit a complex organization comprising numerous compartments, among which are RNA- and protein-rich membraneless, liquid-like organelles known as biomolecular condensates. Energy-consuming processes regulate their formation and dissolution, with (de-)phosphorylation by specific enzym…

[PRX Life] Published Fri Aug 07, 2026

]]> <span>Enzymatically driven remodeling of growth kinetics and internal structure in biomolecular condensates</span> Tamizhmalar Sundararajan, Matteo Boccalini, Roméo Suss, Sandrine Mariot, Emerson R. Da Silva, Fernando C. Giacomelli, Austin Hubley, Theyencheri Narayanan, Alessandro Barducci, and Guillaume Tresset 2026-08-07T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/n8nd-sgs6 10.1103/n8nd-sgs6 PRX Life 2026-08-07T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/61079I7fZ3b12506b05061a91cd732b98ab0be12d Research Articles Research Articles <span>When many noisy genes optimize information flow</span> http://journals.aps.org/prxlife/accepted/03077Ib7C1518407f0042a029a92fdc7b32994ed4 Author(s): Nicholas Lawson and William Bialek<br/><span>It often is emphasized that gene expression is noisy. A seemingly contradictory view is that control mechanisms have been optimized to squeeze as much information as possible out of a limited number of molecules. Here we revisit these issues in a simple model where a single transcription factor (TF)…</span><br/>[PRX Life] Published Mon Aug 03, 2026 Author(s): Nicholas Lawson and William Bialek

It often is emphasized that gene expression is noisy. A seemingly contradictory view is that control mechanisms have been optimized to squeeze as much information as possible out of a limited number of molecules. Here we revisit these issues in a simple model where a single transcription factor (TF)…

[PRX Life] Published Mon Aug 03, 2026

]]> <span>When many noisy genes optimize information flow</span> Nicholas Lawson and William Bialek 2026-08-03T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/f8vw-ddpv 10.1103/f8vw-ddpv PRX Life 2026-08-03T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/03077Ib7C1518407f0042a029a92fdc7b32994ed4 Research Articles Research Articles <span>Low-dimensional coexistence in complex microbial ecosystems</span> http://journals.aps.org/prxlife/accepted/52074I07Yae12401003c3d963797203393a11d204 Author(s): Karthik Srinivasan, Germán Plata, and Purushottam D. Dixit<br/><span>The statistical physics view of microbial ecosystems often invokes random unstructured interactions, consistent with bacterial coexistence in very high-dimensional niche spaces. While this approach successfully reproduces broad community-level statistics, its central assumption of high dimensional c…</span><br/>[PRX Life] Published Mon Aug 03, 2026 Author(s): Karthik Srinivasan, Germán Plata, and Purushottam D. Dixit

The statistical physics view of microbial ecosystems often invokes random unstructured interactions, consistent with bacterial coexistence in very high-dimensional niche spaces. While this approach successfully reproduces broad community-level statistics, its central assumption of high dimensional c…

[PRX Life] Published Mon Aug 03, 2026

]]> <span>Low-dimensional coexistence in complex microbial ecosystems</span> Karthik Srinivasan, Germán Plata, and Purushottam D. Dixit 2026-08-03T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/rtht-q5dr 10.1103/rtht-q5dr PRX Life 2026-08-03T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/52074I07Yae12401003c3d963797203393a11d204 Research Articles Research Articles <span>Thermodynamic cost-controllability tradeoff in metabolic currency coupling</span> http://journals.aps.org/prxlife/accepted/2e077I22Zc81110980348977c115c489e08b13aa9 Author(s): Jumpei F. Yamagishi and Tetsuhiro S. Hatakeyama<br/><span>Cellular metabolism is globally regulated by various currency metabolites such as ATP, GTP, and NAD(P)H. These metabolites cycle between charged (high-energy) and uncharged (low-energy) states to mediate energy transfer. While distinct currency metabolites are associated with different metabolic fun…</span><br/>[PRX Life] Published Tue Jul 21, 2026 Author(s): Jumpei F. Yamagishi and Tetsuhiro S. Hatakeyama

Cellular metabolism is globally regulated by various currency metabolites such as ATP, GTP, and NAD(P)H. These metabolites cycle between charged (high-energy) and uncharged (low-energy) states to mediate energy transfer. While distinct currency metabolites are associated with different metabolic fun…

[PRX Life] Published Tue Jul 21, 2026

]]> <span>Thermodynamic cost-controllability tradeoff in metabolic currency coupling</span> Jumpei F. Yamagishi and Tetsuhiro S. Hatakeyama 2026-07-21T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/4bqh-zhry 10.1103/4bqh-zhry PRX Life 2026-07-21T10:00:00+00:00 http://journals.aps.org/prxlife/accepted/2e077I22Zc81110980348977c115c489e08b13aa9 Research Articles Research Articles