59 citations · 211 across the 39 of their papers we have counts for
11 papers · 1 filter
Reaction-conditioned De Novo Enzyme Design with GENzyme
Chenqing Hua, Jiarui Lu, Yong Liu +7
The introduction of models like RFDiffusionAA, AlphaFold3, AlphaProteo, and Chai1 has revolutionized protein structure modeling and interaction prediction, primarily from a binding…
Structure Language Models for Protein Conformation Generation
Jiarui Lu, Xiaoyin Chen, Stephen Zhewen Lu +4
Proteins adopt multiple structural conformations to perform their diverse biological functions, and understanding these conformations is crucial for advancing drug discovery. Tradi…
MMAU: A Holistic Benchmark of Agent Capabilities Across Diverse Domains
Guoli Yin, Haoping Bai, Shuang Ma +21
Recent advances in large language models (LLMs) have increased the demand for comprehensive benchmarks to evaluate their capabilities as human-like agents. Existing benchmarks, whi…
ToolSandbox: A Stateful, Conversational, Interactive Evaluation Benchmark for LLM Tool Use Capabilities
Jiarui Lu, Thomas Holleis, Yizhe Zhang +9
Recent large language models (LLMs) advancements sparked a growing research interest in tool assisted LLMs solving real-world challenges, which calls for comprehensive evaluation o…
Apple Intelligence Foundation Language Models
Tom Gunter, Zirui Wang, Chong Wang +152
We present foundation language models developed to power Apple Intelligence features, including a ~3 billion parameter model designed to run efficiently on devices and a large serv…
MMIDR: Teaching Large Language Model to Interpret Multimodal Misinformation via Knowledge Distillation
Longzheng Wang, Xiaohan Xu, Lei Zhang +5
Automatic detection of multimodal misinformation has gained a widespread attention recently. However, the potential of powerful Large Language Models (LLMs) for multimodal misinfor…
Fusing Neural and Physical: Augment Protein Conformation Sampling with Tractable Simulations
Jiarui Lu, Zuobai Zhang, Bozitao Zhong +2
The protein dynamics are common and important for their biological functions and properties, the study of which usually involves time-consuming molecular dynamics (MD) simulations…
ProtIR: Iterative Refinement between Retrievers and Predictors for Protein Function Annotation
Zuobai Zhang, Jiarui Lu, Vijil Chenthamarakshan +3
Protein function annotation is an important yet challenging task in biology. Recent deep learning advancements show significant potential for accurate function prediction by learni…
Structure-Informed Protein Language Model
Zuobai Zhang, Jiarui Lu, Vijil Chenthamarakshan +3
Protein language models are a powerful tool for learning protein representations through pre-training on vast protein sequence datasets. However, traditional protein language model…
Can Large Language Models Understand Context?
Yilun Zhu, Joel Ruben Antony Moniz, Shruti Bhargava +6
Understanding context is key to understanding human language, an ability which Large Language Models (LLMs) have been increasingly seen to demonstrate to an impressive extent. Howe…
Unsupervised Discovery of Steerable Factors When Graph Deep Generative Models Are Entangled
Shengchao Liu, Chengpeng Wang, Jiarui Lu +5
Deep generative models (DGMs) have been widely developed for graph data. However, much less investigation has been carried out on understanding the latent space of such pretrained…