arXiv q-bio.BM Biomolecules

Liu, Wang, Nian, Ma, Zhao, V\'asquez, Guo, Ding, Davari: Decoding Polyphenol-Protein Interactions with Deep Learning: From Molecular Mechanisms to Food Applications https://arxiv.org/abs/2508.03456 https://arxiv.org/pdf/2508.03456 https://arxiv.org/html/2508.03456

[2025-08-06 Wed (UTC), 1 new article found for q-bioBM Biomolecules]

Xuan Liu, Siru Ouyang, Xianrui Zhong, Jiawei Han, Huimin Zhao: FGBench: A Dataset and Benchmark for Molecular Property Reasoning at Functional Group-Level in Large Language Models https://arxiv.org/abs/2508.01055 https://arxiv.org/pdf/2508.01055 https://arxiv.org/html/2508.01055

Sharmi Banerjee, Mostafa Karimi, Melih Yilmaz, Tommi Jaakkola, Bella Dubrov, Shang Shang, Ron Benson: Pi-SAGE: Permutation-invariant surface-aware graph encoder for binding affinity prediction https://arxiv.org/abs/2508.01924 https://arxiv.org/pdf/2508.01924 https://arxiv.org/html/2508.01924

Lan, Ding, Chen, Jiang, Chun, Cheng, Li, Cai, Lin, Yoo: Contrastive Multi-Task Learning with Solvent-Aware Augmentation for Drug Discovery https://arxiv.org/abs/2508.01799 https://arxiv.org/pdf/2508.01799 https://arxiv.org/html/2508.01799

[2025-08-05 Tue (UTC), 2 new articles found for q-bioBM Biomolecules]

Marlen Neubert, Patrick Reiser, Frauke Gr\"ater, Pascal Friederich: Learning Potential Energy Surfaces of Hydrogen Atom Transfer Reactions in Peptides https://arxiv.org/abs/2508.00578 https://arxiv.org/pdf/2508.00578 https://arxiv.org/html/2508.00578

[2025-08-04 Mon (UTC), no new articles found for q-bioBM Biomolecules]

Jorge A. Vila: Factors controlling protein evolvability, at the molecular scale https://arxiv.org/abs/2507.23481 https://arxiv.org/pdf/2507.23481 https://arxiv.org/html/2507.23481

[2025-08-01 Fri (UTC), no new articles found for q-bioBM Biomolecules]

Adar, Baron, Rofman, Bar-Dolev, Bahari, Yashunsky, Sirotinskaya, Shoseyov, Braslavsky: Biomimetic Engineering of a Fortified Ice Composite with Enhanced Mechanical Properties https://arxiv.org/abs/2507.22068 https://arxiv.org/pdf/2507.22068 https://arxiv.org/html/2507.22068

[2025-07-31 Thu (UTC), 1 new article found for q-bioBM Biomolecules]

Abrudan, Ojeda, Joshi, Greenig, Engelberger, Khmelinskaia, Meiler, Vendruscolo, Knowles: Multi-state Protein Design with DynamicMPNN https://arxiv.org/abs/2507.21938 https://arxiv.org/pdf/2507.21938 https://arxiv.org/html/2507.21938

Xiang Liu, Xuefei Huang, Guo-Wei Wei: Machine-Learning Prediction of Virus-like Particle Stoichiometry and Stability using Persistent Topological Laplacians https://arxiv.org/abs/2507.21417 https://arxiv.org/pdf/2507.21417 https://arxiv.org/html/2507.21417

[2025-07-30 Wed (UTC), 1 new article found for q-bioBM Biomolecules]

Samiul Based Shuvo, Tasnia Binte Mamun, U Rajendra Acharya: ResCap-DBP: A Lightweight Residual-Capsule Network for Accurate DNA-Binding Protein Prediction Using Global ProteinBERT Embeddings https://arxiv.org/abs/2507.20426 https://arxiv.org/pdf/2507.20426 https://arxiv.org/html/2507.20426

Yi He, Ailun Wang, Zhi Wang, Yu Liu, Xingyuan Xu, Wen Yan: Generative molecule evolution using 3D pharmacophore for efficient Structure-Based Drug Design https://arxiv.org/abs/2507.20130 https://arxiv.org/pdf/2507.20130 https://arxiv.org/html/2507.20130

Zhang, Chen, Yang, Wei, Zhang, Wang, Liu, Zhang, Wu, Pan, Shen, Cao, Deng: Modeling enzyme temperature stability from sequence segment perspective https://arxiv.org/abs/2507.19755 https://arxiv.org/pdf/2507.19755 https://arxiv.org/html/2507.19755

Pei-Kun Yang: Ligand Pose Generation via QUBO-Based Hotspot Sampling and Geometric Triplet Matching https://arxiv.org/abs/2507.20304 https://arxiv.org/pdf/2507.20304 https://arxiv.org/html/2507.20304

Fran\c{c}ois Charih, James R. Green, Kyle K. Biggar: Sequence-based protein-protein interaction prediction and its applications in drug discovery https://arxiv.org/abs/2507.19805 https://arxiv.org/pdf/2507.19805 https://arxiv.org/html/2507.19805

[2025-07-29 Tue (UTC), 2 new articles found for q-bioBM Biomolecules]

Latent Labs Team, et al.: Latent-X: An Atom-level Frontier Model for De Novo Protein Binder Design https://arxiv.org/abs/2507.19375 https://arxiv.org/pdf/2507.19375 https://arxiv.org/html/2507.19375

Ziyan Wang, Zhankun Xiong, Feng Huang, Wen Zhang: PKAG-DDI: Pairwise Knowledge-Augmented Language Model for Drug-Drug Interaction Event Text Generation https://arxiv.org/abs/2507.19011 https://arxiv.org/pdf/2507.19011 https://arxiv.org/html/2507.19011

[2025-07-28 Mon (UTC), 2 new articles found for q-bioBM Biomolecules]

Robert G. Endres: The unreasonable likelihood of being: origin of life, terraforming, and AI https://arxiv.org/abs/2507.18545 https://arxiv.org/pdf/2507.18545 https://arxiv.org/html/2507.18545

R{\i}za \"Oz\c{c}elik, Sarah de Ruiter, Francesca Grisoni: Look the Other Way: Designing 'Positive' Molecules with Negative Data via Task Arithmetic https://arxiv.org/abs/2507.17876 https://arxiv.org/pdf/2507.17876 https://arxiv.org/html/2507.17876

Mohaddeseh Sharifi, S. Hajir Bahrami: Synthesis of nanoparticles from carboxymethyl cellulose using one-pot hydrothermal carbonization for Drug Entrapment Studies https://arxiv.org/abs/2507.18299 https://arxiv.org/pdf/2507.18299 https://arxiv.org/html/2507.18299

[2025-07-25 Fri (UTC), 1 new article found for q-bioBM Biomolecules]

Sven Larsen-Ledet, Aleksandra Panfilova, Amelie Stein: Variant effects on protein-protein interactions: methods, models and diseases https://arxiv.org/abs/2507.17446 https://arxiv.org/pdf/2507.17446 https://arxiv.org/html/2507.17446

[2025-07-24 Thu (UTC), 1 new article found for q-bioBM Biomolecules]