10 papers
AEGIS: Assay-Aware Protocol Validation and Runtime Monitoring for Open-Source Liquid Handling Robots
Priyanka V. Setty, Arvind Ramanathan, Ian Foster +1
Self-driving laboratories increasingly rely on low-cost liquid handlers such as the Opentrons OT-2, which ship without the pressure-based aspiration monitoring of Hamilton or Tecan…
Precise but Uncoupled: Reviewer Precision Does Not Guarantee Critique Uptake in Multi-Agent Math Reasoning
Chih-Hsuan Yang, Jingyan Jiang, Vikram Vasudevan +7
Many math- and science-oriented agent systems use hierarchical designs with specialized reviewer roles, assuming that a dedicated review stage should help turn wrong candidates int…
BioAlchemy: Distilling Biological Literature into Reasoning-Ready Reinforcement Learning Training Data
Brian Hsu, Ozan Gökdemir, Carlo Siebenschuh +7
Despite the large corpus of biology training text, the impact of reasoning models on biological research generally lags behind math and coding. In this work, we show that biology q…
PRISM: Protocol Refinement through Intelligent Simulation Modeling
Brian Hsu, Priyanka V Setty, Rory M Butler +7
Automating experimental protocol design and execution remains as a fundamental bottleneck in realizing self-driving laboratories. We introduce PRISM (Protocol Refinement through In…
FragmentGPT: A Unified GPT Model for Fragment Growing, Linking, and Merging in Molecular Design
Xuefeng Liu, Songhao Jiang, Qinan Huang +5
Fragment-Based Drug Discovery (FBDD) is a popular approach in early drug development, but designing effective linkers to combine disconnected molecular fragments into chemically an…
ScaffoldGPT: A Scaffold-based GPT Model for Drug Optimization
Xuefeng Liu, Songhao Jiang, Ian Foster +2
Drug optimization has become increasingly crucial in light of fast-mutating virus strains and drug-resistant cancer cells. Nevertheless, it remains challenging as it necessitates r…