Alexander Dack, Tomislav Plesa, Thomas E. Ouldridge: Recurrent neural chemical reaction networks trained to switch dynamical behaviours through learned bifurcations https://arxiv.org/abs/2602.02374 https://arxiv.org/pdf/2602.02374 https://arxiv.org/html/2602.02374

Hasi Hays, William J. Richardson: RAG-GNN: Integrating Retrieved Knowledge with Graph Neural Networks for Precision Medicine https://arxiv.org/abs/2602.00586 https://arxiv.org/pdf/2602.00586 https://arxiv.org/html/2602.00586

[2026-02-03 Tue (UTC), 2 new articles found for q-bioMN Molecular Networks]

Bhavyahshree Navaneetha Krishnan, Adel Heydarabadipour, Herbert Sauro: BioModelsRAG: A Biological Modeling Assistant Using RAG (Retrieval Augmented Generation) https://arxiv.org/abs/2601.22684 https://arxiv.org/pdf/2601.22684 https://arxiv.org/html/2601.22684

[2026-02-02 Mon (UTC), 1 new article found for q-bioMN Molecular Networks]

Sil, Tiwari, Garisetti, Baskaran, Dhanaseelan, Srivastava, Samal: Computational investigation of single herbal drugs in Ayurveda for diabetes and obesity using knowledge graph and network pha... https://arxiv.org/abs/2601.21643 https://arxiv.org/pdf/2601.21643 https://arxiv.org/html/2601.21643

[2026-01-30 Fri (UTC), 1 new article found for q-bioMN Molecular Networks]

Domitilla Del Vecchio: Control systems for synthetic biology and a case-study in cell fate reprogramming https://arxiv.org/abs/2601.20135 https://arxiv.org/pdf/2601.20135 https://arxiv.org/html/2601.20135

[2026-01-29 Thu (UTC), no new articles found for q-bioMN Molecular Networks]

[2026-01-28 Wed (UTC), no new articles found for q-bioMN Molecular Networks]

Maurice Filo, Nicol\`o Rossi, Zhou Fang, Mustafa Khammash: GenAI-Net: A Generative AI Framework for Automated Biomolecular Network Design https://arxiv.org/abs/2601.17582 https://arxiv.org/pdf/2601.17582 https://arxiv.org/html/2601.17582

[2026-01-27 Tue (UTC), no new articles found for q-bioMN Molecular Networks]

[2026-01-26 Mon (UTC), no new articles found for q-bioMN Molecular Networks]

Lars Lorch, Jiaqi Zhang, Charlotte Bunne, Andreas Krause, Bernhard Sch\"olkopf, Caroline Uhler: Latent Causal Diffusions for Single-Cell Perturbation Modeling https://arxiv.org/abs/2601.15341 https://arxiv.org/pdf/2601.15341 https://arxiv.org/html/2601.15341

[2026-01-23 Fri (UTC), 1 new article found for q-bioMN Molecular Networks]

[2026-01-22 Thu (UTC), no new articles found for q-bioMN Molecular Networks]

Xiangting Li, Tom Chou: A generalized work theorem for stopped stochastic chemical reaction networks https://arxiv.org/abs/2601.12854 https://arxiv.org/pdf/2601.12854 https://arxiv.org/html/2601.12854

Tatsuaki Tsuruyama: Fluctuation Theorems from a Continuous-Time Markov Model of Information-Thermodynamic Capacity in Biochemical Signal Cascades https://arxiv.org/abs/2601.11941 https://arxiv.org/pdf/2601.11941 https://arxiv.org/html/2601.11941

[2026-01-21 Wed (UTC), 1 new article found for q-bioMN Molecular Networks]

[2026-01-20 Tue (UTC), no new articles found for q-bioMN Molecular Networks]

[2026-01-19 Mon (UTC), no new articles found for q-bioMN Molecular Networks]

[2026-01-16 Fri (UTC), no new articles found for q-bioMN Molecular Networks]

[2026-01-15 Thu (UTC), no new articles found for q-bioMN Molecular Networks]

Galen J. Wilkerson: Crossing the Functional Desert: Critical Cascades and a Feasibility Transition for the Emergence of Life https://arxiv.org/abs/2601.06272 https://arxiv.org/pdf/2601.06272 https://arxiv.org/html/2601.06272

[2026-01-14 Wed (UTC), no new articles found for q-bioMN Molecular Networks]

Gao, Zhang, Li, Chen, Wang, Qi, Wang: PLANET v2.0: A comprehensive Protein-Ligand Affinity Prediction Model Based on Mixture Density Network https://arxiv.org/abs/2601.07415 https://arxiv.org/pdf/2601.07415 https://arxiv.org/html/2601.07415

Dario Borrelli: Largest connected component in duplication-divergence growing graphs with symmetric coupled divergence https://arxiv.org/abs/2601.07024 https://arxiv.org/pdf/2601.07024 https://arxiv.org/html/2601.07024

Carlos Floyd, Hector Manuel Lopez Rios, Aaron R. Dinner, Suriyanarayanan Vaikuntanathan: In-context learning emerges in chemical reaction networks without attention https://arxiv.org/abs/2601.06712 https://arxiv.org/pdf/2601.06712 https://arxiv.org/html/2601.06712

[2026-01-13 Tue (UTC), no new articles found for q-bioMN Molecular Networks]

[2026-01-12 Mon (UTC), no new articles found for q-bioMN Molecular Networks]

Eugenio Simao: Thermodynamic Constraints Drive Hierarchical Preemption in Cellular Decision-Making: A Hybrid Petri Net Framework with Application to Bacillus subtilis Sporulation https://arxiv.org/abs/2601.04335 https://arxiv.org/pdf/2601.04335 https://arxiv.org/html/2601.04335

[2026-01-09 Fri (UTC), 1 new article found for q-bioMN Molecular Networks]

Wajid Arshad Abbasi, Syed Ali Abbas, Maryum Bibi, Saiqa Andleeb, Muhammad Naveed Akhtar: Investigating Knowledge Distillation Through Neural Networks for Protein Binding Affinity Prediction https://arxiv.org/abs/2601.03704 https://arxiv.org/pdf/2601.03704 https://arxiv.org/html/2601.03704

Ryan LeFebre, Fabrisia Ambrosio, Andrew Mugler: Restoring information in aged gene regulatory networks by single knock-ins https://arxiv.org/abs/2601.04016 https://arxiv.org/pdf/2601.04016 https://arxiv.org/html/2601.04016

Jacobs, Voits, Frolov, Schwarz, Gelens: Understanding the temperature response of biological systems: Part II -- Network-level mechanisms and emergent dynamics https://arxiv.org/abs/2601.03307 https://arxiv.org/pdf/2601.03307 https://arxiv.org/html/2601.03307

[2026-01-08 Thu (UTC), 2 new articles found for q-bioMN Molecular Networks]

Tomislav Plesa, Julien Clinton Sprott: Simple chemical systems with chaos https://arxiv.org/abs/2601.02787 https://arxiv.org/pdf/2601.02787 https://arxiv.org/html/2601.02787

[2026-01-07 Wed (UTC), no new articles found for q-bioMN Molecular Networks]

Xueqing Xu, Yonghang Gao, Duanchen Sun, Ling-Yun Wu: HyperNetWalk: A Unified Framework for Personalized and Population-Level Cancer Driver Gene Identification via Multi-Network Hypergraph Dif... https://arxiv.org/abs/2601.01337 https://arxiv.org/pdf/2601.01337 https://arxiv.org/html/2601.01337

Pedro Pessoa, Steve Press\'e, S. Banu Ozkan: Allostery Beyond Amplification: Temporal Regulation of Signaling Information https://arxiv.org/abs/2601.01850 https://arxiv.org/pdf/2601.01850 https://arxiv.org/html/2601.01850

[2026-01-06 Tue (UTC), 1 new article found for q-bioMN Molecular Networks]

Leroy Cronin, Sara I. Walker: The Physics of Causation https://arxiv.org/abs/2601.00515 https://arxiv.org/pdf/2601.00515 https://arxiv.org/html/2601.00515

Eugenio Simao: Unifying Weak Independence and Signal Hierarchy Theory: Extended Biological Petri Net Formalism with Application to Vibrio fischeri Quorum Sensing https://arxiv.org/abs/2601.00036 https://arxiv.org/pdf/2601.00036 https://arxiv.org/html/2601.00036

[2026-01-05 Mon (UTC), 1 new article found for q-bioMN Molecular Networks]

[2026-01-02 Fri (UTC), no new articles found for q-bioMN Molecular Networks]

Sascha H. Hauck, Sandip Saha, Narsis A. Kiani, Jesper N. Tegner: Epigenetic Control and Reprogramming-Induced Potential Landscapes of Gene Regulatory Networks: A Quantitative Theoretical Appr... https://arxiv.org/abs/2512.24427 https://arxiv.org/pdf/2512.24427 https://arxiv.org/html/2512.24427

Troy A. Kervin: Sheaf-theoretic representation of the proteolipid code https://arxiv.org/abs/2512.23784 https://arxiv.org/pdf/2512.23784 https://arxiv.org/html/2512.23784

[2026-01-01 Thu (UTC), 2 new articles found for q-bioMN Molecular Networks]

[2025-12-31 Wed (UTC), no new articles found for q-bioMN Molecular Networks]

Marianne Bauer, William Bialek: Ambiguous signals and efficient codes https://arxiv.org/abs/2512.23531 https://arxiv.org/pdf/2512.23531 https://arxiv.org/html/2512.23531