Chia-Hsuan Chang, Brian Ondov, Jiang Lv, Lan Jiang, Yunmai Wang, Haerin Song, Xueqing Peng, Qiaozhu Mei 等 10 位作者
AI co-scientists have expanded the use of large language models for generating scientific hypotheses and guiding experimental investigation. Here we investigate whether temporal patterns in the semantic representations of complete biomedical conclusions can guide hypothesis generation. We introduce ForeSCITE, a framework that identifies thematic clusters of published conclusions, estimates a direction separating earlier from more recent findings within each cluster, and projects existing conclusion embeddings along these directions. An embedding language model trained to reconstruct conclusions decodes the projected coordinates into natural-language hypotheses. Across 407 clusters derived from approximately three million pre-cutoff conclusions, we identify temporal structure and illustrate its retention after decoding. In retrospective, time-sliced evaluations, ForeSCITE increases semantic coverage beyond the historical corpus, biomedical entity-pair novelty and post-cutoff pair re-observation relative to five prompt-based and retrieval-augmented baselines. Expert review of prioritized CAR-T hypotheses identified 37 candidates as both novel and biologically plausible, and expert justifications for five selected hypotheses illustrate their biological rationale and subsequent literature support where available. These findings support temporal guidance in semantic space as a scalable mechanism for proposing biomedical hypotheses for subsequent scientific evaluation.
Chain-of-Thought (CoT) reasoning has significantly enhanced the reasoning capabilities of large language models (LLMs). However, existing reinforcement learning methods primarily optimize outcome-level rewards, providing limited supervision over the reasoning process. As a result, models may produce shortcut-prone or unstable reasoning trajectories even when the final answer is correct. We propose GeoFaith, a spatio-temporal latent dynamics framework for learning faithful reasoning processes without process reward models. GeoFaith combines final-state latent uncertainty, which measures whether a completed trajectory lies in a well-supported manifold region, with predictive-entropy dynamics, which penalize abnormal uncertainty patterns such as premature collapse, oscillation, and prolonged uncertainty. These signals are incorporated as process regularization into GRPO, jointly optimizing answer correctness and reasoning quality without step-level process annotations. Experiments show that GeoFaith consistently improves reasoning accuracy, produces more efficient reasoning trajectories, and outperforms both outcome-only reinforcement learning and process-supervision baselines.