7 papers
PROTEAN: Beyond De Novo Generation - Can LLM Agents Perform Text-Guided Protein Structure Editing?
Encheng Su, Xinping Liu, Yizhou Wang +11
Generative AI has achieved remarkable success in de novo protein design, yet protein engineering typically begins with existing, characterized proteins. The primary demand is targe…
Fitness aligned structural modeling enables scalable virtual screening with AuroBind
Zhongyue Zhang, Jiahua Rao, Jie Zhong +22
Most human proteins remain undrugged, over 96% of human proteins remain unexploited by approved therapeutics. While structure-based virtual screening promises to expand the druggab…
CMT: A Cascade MAR with Topology Predictor for Multimodal Conditional CAD Generation
Jianyu Wu, Yizhou Wang, Xiangyu Yue +5
While accurate and user-friendly Computer-Aided Design (CAD) is crucial for industrial design and manufacturing, existing methods still struggle to achieve this due to their over-s…
UniSTD: Towards Unified Spatio-Temporal Learning across Diverse Disciplines
Chen Tang, Xinzhu Ma, Encheng Su +6
Traditional spatiotemporal models generally rely on task-specific architectures, which limit their generalizability and scalability across diverse tasks due to domain-specific desi…
Revisiting Convolution Architecture in the Realm of DNA Foundation Models
Yu Bo, Weian Mao, Yanjun Shao +6
In recent years, a variety of methods based on Transformer and state space model (SSM) architectures have been proposed, advancing foundational DNA language models. However, there…
Model Decides How to Tokenize: Adaptive DNA Sequence Tokenization with MxDNA
Lifeng Qiao, Peng Ye, Yuchen Ren +5
Foundation models have made significant strides in understanding the genomic language of DNA sequences. However, previous models typically adopt the tokenization methods designed f…
COMET: Benchmark for Comprehensive Biological Multi-omics Evaluation Tasks and Language Models
Yuchen Ren, Wenwei Han, Qianyuan Zhang +13
As key elements within the central dogma, DNA, RNA, and proteins play crucial roles in maintaining life by guaranteeing accurate genetic expression and implementation. Although res…