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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 10h

Yiming Ren, Josh V. Vermaas, Guo-Wei Wei: MathAgent: Multi-Agent Optimization of Mathematical Invariants for Molecular Property Prediction arxiv.org/abs/2610.03992 arxiv.org/pdf/2610.03992 arxiv.org/html/2610.03992

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 10h

[2026-10-06 Tue (UTC), 1 new article found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 05/10/2026

[2026-10-05 Mon (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 02/10/2026

Maddipatla, M\aeots, Pegoraro, Dr\"ager, Covino, Vedula, Pacesa, Bronstein: Fold'EM: Direct atomic structure inference from Cryo-EM particles arxiv.org/abs/2610.01358 arxiv.org/pdf/2610.01358 arxiv.org/html/2610.01358

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 02/10/2026

Xichen Sun, Wentao Wei, Xiaoxi Zhang, Yuedong Yang, Jiahua Rao: Multi-Scale Temporal Flows for Peptide Trajectory Generation arxiv.org/abs/2610.01086 arxiv.org/pdf/2610.01086 arxiv.org/html/2610.01086

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 02/10/2026

Gennadi Glinsky: Molecular architecture of TE-seeded chromosome-naive initiation networks of protein-protein interactions delineates the Human Protein Map of the assembly of multiprotein comp... arxiv.org/abs/2610.01078 arxiv.org/pdf/2610.01078 arxiv.org/html/2610.01078

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 02/10/2026

Aaron L. Feller, Andrew D. Ellington, Claus O. Wilke: StabilityArc: Decoding Protein Sequence Embeddings into Generalizable Stability Landscapes arxiv.org/abs/2610.00742 arxiv.org/pdf/2610.00742 arxiv.org/html/2610.00742

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 02/10/2026

[2026-10-02 Fri (UTC), 4 new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 01/10/2026

Xiangting Lei, K. R. Prathyusha, Carlos Floyd, Jerry Honts, Saad Bhamla: Ca$^{2+}$-tunable mechanics and recoil in reconstituted Tcb2 networks arxiv.org/abs/2609.38667 arxiv.org/pdf/2609.38667 arxiv.org/html/2609.38667

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 01/10/2026

[2026-10-01 Thu (UTC), 1 new article found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 30/09/2026

Valhalla Team: Leveraging secondary-structure information for accurate nucleic acid structure prediction with OFoldNA arxiv.org/abs/2609.37414 arxiv.org/pdf/2609.37414 arxiv.org/html/2609.37414

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 30/09/2026

Zefeng Lin, Xianyong Fang, Tianfan Fu, Xiaohua Xu: RNA Design via Conditioned Flow Matching and Finite-Policy Reinforcement Learning arxiv.org/abs/2609.36885 arxiv.org/pdf/2609.36885 arxiv.org/html/2609.36885

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 30/09/2026

Haocheng Tang, Junmei Wang, Wengong Jin: Where Should Physics Enter a Molecular Crystal Generator? arxiv.org/abs/2609.36398 arxiv.org/pdf/2609.36398 arxiv.org/html/2609.36398

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 30/09/2026

[2026-09-30 Wed (UTC), 4 new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 29/09/2026

Alan N. Amin, Mattia G. Gollub, Andrei Slabodkin, Elizabeth B. Wood, Eli N. Weinstein: Continuous Variational Synthesis arxiv.org/abs/2609.35083 arxiv.org/pdf/2609.35083 arxiv.org/html/2609.35083

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 29/09/2026

Ming-Hsiu Wu, Xuejiao Shirley Guo, Bingsong Zeng, Ziqian Xie, Shuiwang Ji, Wenshe Liu, Cui Tao, Degui Zhi: Assay-Aware BindingDB: Curating Experimental Context for Binding Affinity Prediction arxiv.org/abs/2609.34001 arxiv.org/pdf/2609.34001 arxiv.org/html/2609.34001

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 29/09/2026

Xingjian Xu, Chunmei Wang, Jiahui Chen: PHL: Persistent Hyperdigraph Learning for Protein-Protein Binding Affinity Prediction arxiv.org/abs/2609.33122 arxiv.org/pdf/2609.33122 arxiv.org/html/2609.33122

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 29/09/2026

Isaac Ellmen, David Errington, Matthew I. J. Raybould, Charlotte M. Deane: Correcting the Dropout-LayerNorm Expectation Gap Improves Protein Structure Models arxiv.org/abs/2609.32062 arxiv.org/pdf/2609.32062 arxiv.org/html/2609.32062

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 29/09/2026

[2026-09-29 Tue (UTC), 4 new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 28/09/2026

[2026-09-28 Mon (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 25/09/2026

[2026-09-25 Fri (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 24/09/2026

[2026-09-24 Thu (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 23/09/2026

Matthew W. Cotton, David Klenerman, Georg Meisl: In Vivo Length Distributions as Mechanistic Fingerprints of Pathological Protein Aggregation arxiv.org/abs/2609.25998 arxiv.org/pdf/2609.25998 arxiv.org/html/2609.25998

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 23/09/2026

[2026-09-23 Wed (UTC), 1 new article found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 22/09/2026

Kairi Furui, Masahito Ohue: Adapting Boltz-2 with limited experimental activity data improves early enrichment in virtual screening arxiv.org/abs/2609.24302 arxiv.org/pdf/2609.24302 arxiv.org/html/2609.24302

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 22/09/2026

Weiren Zhao, Takeyuki Tamura: Decoding enzyme-substrate interaction topology reveals principles underlying catalytic efficiency and mutational outcomes arxiv.org/abs/2609.24157 arxiv.org/pdf/2609.24157 arxiv.org/html/2609.24157

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 22/09/2026

[2026-09-22 Tue (UTC), 2 new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 21/09/2026

[2026-09-21 Mon (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 18/09/2026

[2026-09-18 Fri (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 17/09/2026

[2026-09-17 Thu (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 16/09/2026

Wanchao Chen, Wen Li, Yanan He, Yan Yang: SaltyMeta: a curated benchmark and protein language model-informed web tool for salty peptide prediction arxiv.org/abs/2609.16809 arxiv.org/pdf/2609.16809 arxiv.org/html/2609.16809

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 16/09/2026

Temitope Sobodu, Victor Chibuzor Johnson, Ryan Kern, Peter Oni: Exploring Optimal Parameters for Ligand-Based Virtual Screening in Early Drug Discovery arxiv.org/abs/2609.16356 arxiv.org/pdf/2609.16356 arxiv.org/html/2609.16356

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 16/09/2026

[2026-09-16 Wed (UTC), 2 new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 15/09/2026

Hyosoon Jang, Taewon Kim, Sungsoo Ahn: Synthesizing State-of-the-Art Structure Predictions from Soup of Co-folding Models arxiv.org/abs/2609.15552 arxiv.org/pdf/2609.15552 arxiv.org/html/2609.15552

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 15/09/2026

Yixiao Li, Yining Qian, Yefan Chen, Zenghui Chen, Jiayue Sun, Yuhai Zhao, Cheng Tan, An-Yang Lu: Chemical and geometric representation fidelity improves drug--target affinity prediction arxiv.org/abs/2609.13230 arxiv.org/pdf/2609.13230 arxiv.org/html/2609.13230

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 15/09/2026

[2026-09-15 Tue (UTC), 2 new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 14/09/2026

[2026-09-14 Mon (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 11/09/2026

Andrea Zerio, Yighua Yao, Alessandro Micheli, Roland G. Huber, Mile Sikic, Samir Bhatt, Andres R. Masegosa, Yuangang Pan: Sequence-Informed Geometric Evaluation of RNA 3D Structures arxiv.org/abs/2609.10644 arxiv.org/pdf/2609.10644 arxiv.org/html/2609.10644

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 11/09/2026

[2026-09-11 Fri (UTC), 1 new article found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 10/09/2026

[2026-09-10 Thu (UTC), no new articles found for q-bioBM Biomolecules]

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

Sudha, Saha, Desai, Mhashal, Biswas: Multi-ligand simultaneous docking of Carica papaya leaf phytochemicals, Carpaine and Rutin, reveals multi-mechanism inhibition of cancer proteins BCL-2 an... arxiv.org/abs/2609.08547 arxiv.org/pdf/2609.08547 arxiv.org/html/2609.08547

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

Vsevolod Viliuga, Leif Seute, Matteo Tadiello, Nicolas Wolf, Frauke Gr\"ater, Arne Elofsson: Predicting directional flexibility in proteins arxiv.org/abs/2609.08474 arxiv.org/pdf/2609.08474 arxiv.org/html/2609.08474

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

Peining Zhang, Jinbo Bi: PocketVE: Stable and Property-Guided Structure-Based Drug Design with Variance-Exploding Diffusion arxiv.org/abs/2609.08101 arxiv.org/pdf/2609.08101 arxiv.org/html/2609.08101

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

Mushal Zia, Benjamin Jones, Guo-Wei Wei: PSLL: Persistent Sheaf Laplacian Learning for Protein-Ligand Binding Affinity Prediction arxiv.org/abs/2609.05475 arxiv.org/pdf/2609.05475 arxiv.org/html/2609.05475

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

Ferreira, Lin, Aslam, Chang, Baig, Baculi, Cao, Senn: Condition aware learning enables robust prediction of oligonucleotide melting behavior across diverse chemistries and assay conditions arxiv.org/abs/2609.05454 arxiv.org/pdf/2609.05454 arxiv.org/html/2609.05454

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

Mohammed Sameer Syed, Tamara Dinneen: ZetaDial: dialing net charge of protein binders at inference time for therapeutic developability arxiv.org/abs/2609.05451 arxiv.org/pdf/2609.05451 arxiv.org/html/2609.05451

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

Botermans, Beamish, Cartiglia, Vandekerckhove, Renckens, Biesmans, Ongena, Peeters, Van Dorpe, Marion: Precise Positional Readout of Molecular Barcode Structures using Solid-State Nanopores arxiv.org/abs/2609.05445 arxiv.org/pdf/2609.05445 arxiv.org/html/2609.05445

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

Tahmid Enam Shrestha, Md. Manzurul Hasan, Md. Rafiqul Islam: Novel hybrid protein scaffold gap filling using weighted machine learning ensemble, beam search, and mass-constrained reranking arxiv.org/abs/2609.05436 arxiv.org/pdf/2609.05436 arxiv.org/html/2609.05436

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arXiv q-bio.BM Biomolecules @qbiobm-bot.bsky.social · 09/09/2026

[2026-09-09 Wed (UTC), 8 new articles found for q-bioBM Biomolecules]

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