3 papers
q-bio.BM2025
Apo2Mol: 3D Molecule Generation via Dynamic Pocket-Aware Diffusion Models
Xinzhe Zheng, Shiyu Jiang, Gustavo Seabra +2
Deep generative models are rapidly advancing structure-based drug design, offering substantial promise for generating small molecule ligands that bind to specific protein targets.…
q-bio.QM2025
Evaluating DNA function understanding in genomic language models using evolutionarily implausible sequences
Shiyu Jiang, Xuyin Liu, Zitong Jerry Wang
Genomic language models (gLMs) hold promise for generating novel, functional DNA sequences for synthetic biology. However, realizing this potential requires models to go beyond evo…
cs.LG2024
Towards Graph Prompt Learning: A Survey and Beyond
Qingqing Long, Yuchen Yan, Peiyan Zhang +12
Large-scale "pre-train and prompt learning" paradigms have demonstrated remarkable adaptability, enabling broad applications across diverse domains such as question answering, imag…