Accepted Papers

#2. PlantBGC: Transformer for Plant BGC Discovery via Label-Free Domain Adaptation and Weak Supervision [PDF]
Yuhan Zhao, Nidhi Grover, Zhishan Guo and Ning Sui

#5. MolDeBERTa: Foundational Model for Physicochemical and Substructure-Informed Molecular Representation Learning [PDF], [Video]
Gabriel Bianchin de Oliveira and Fahad Saeed

#6. LLMBDC: Language Model for Biological Domains Oriented Clustering of Gene Ontology [PDF]
Ximing Ran, Jie Xu, Peng Jin, Zhaohui Qin, Zhexing Wen and Jiaying Lu

#7. Predicting Therapeutic Outcome via Aligning Patient-Specific Knowledge Graph and Gene-Level Perturbation Representations [PDF]
Dongmin Bang, SUGYUN AN, Inyoung Sung, Ilho Yun, Sun Kim, Sangseon Lee

#10. SCTA: An Agentic Framework for Stable and Interpretable Target Gene Discovery from Single-Cell RNA Sequencing [PDF]
Chen Zhu, Shuyu Chen, Ye Zhang, Yang Li, Qiqi Xie, Haohan Wang

#11. Stability-informed low-N learning of protein fitness landscape
Shannon Zhang and Yunan Luo

#13. PRIME: Protein Representation via Physics-Informed Multiscale Equivariant Hierarchies [PDF], [Video]
Viet Thanh Duy Nguyen, John K. Johnstone and Truong-Son Hy

#14. Geometry-Informed Parameter-Efficient Fine-Tuning of Pre-trained Molecular GNNs for Blood-Brain Barrier Permeability Prediction [PDF]
Marco Vega, Long Nguyen and Binh Nguyen

#15. A Time-to-Event Digital Twin Framework for Predicting ALS Progression and Healthcare Utilization
Zongliang Yue, Qi Li, Terry Heiman-Patterson, Frank Bearoff, Zhaohui Qin and Huanmei Wu

#18. RiboRep: Replicate-Aware Cross-Modal Transformers for Codon-Resolved Ribosome Density Prediction
Ai-te Kuo, Zongliang Yue, Wei-Shinn Ku and Hao Chen

#19. Protein Representation Learning with Secondary-Structure and Energy-Filtered Hydrogen-Bond Graphs [PDF]
Mohamed Mouhajir, Limei Wang, El Houcine Bergou, Hajar El Hammouti, Lamiae Azizi and Dongqi Fu

#21. Toward Digital Twin-Ready Brain Tumor Segmentation: A Multi-Pillar Comparison of Transformer and Convolutional Models [PDF], [Video]
Tanmoy Debnath and Miroslaw Narbutt