Zekai Lin

Zekai Lin, Chao Xue, Di Liang et al.

Supervised Fine-Tuning (SFT) of large language models often suffers from task interference and catastrophic forgetting. Recent approaches alleviate this issue by isolating task-critical parameters during training. However, these methods represent a static solution to a dynamic problem, assuming that parameter importance remains fixed once identified. In this work, we empirically demonstrate that parameter importance exhibits temporal drift over the course of training. To address this, we propose Evolving Parameter Isolation (EPI), a fine-tuning framework that adapts isolation decisions based on online estimates of parameter importance. Instead of freezing a fixed subset of parameters, EPI periodically updates isolation masks using gradient-based signals, enabling the model to protect emerging task-critical parameters while releasing outdated ones to recover plasticity. Experiments on diverse multi-task benchmarks demonstrate that EPI consistently reduces interference and forgetting compared to static isolation and standard fine-tuning, while improving overall generalization. Our analysis highlights the necessity of synchronizing isolation mechanisms with the evolving dynamics of learning diverse abilities.

Haoran Sun, Yankai Jiang, Zhenyu Tang et al.

The foundation of reproducible science lies in protocols that are precise, logically ordered, and executable. The autonomous generation of these protocols through natural language queries could greatly improve the efficiency of the reproduction process. However, current leading large language models (LLMs) often generate incomplete or inconsistent protocols, limiting their utility. To address this limitation, we first introduce SciRecipe, a large-scale dataset of over 12K structured protocols spanning 27 biological subfields and encompassing both comprehension and problem-solving tasks. To further improve protocol generation, we propose the "Sketch-and-Fill" paradigm, which separates analysis, structuring, and expression to ensure each step is explicit and verifiable. Complementing this, the structured component-based reward mechanism evaluates step granularity, action order, and semantic fidelity, aligning model optimization with experimental reliability. Building on these components, we develop Thoth, trained through a staged Knowledge-to-Action process that progresses from knowledge acquisition to operational reasoning and ultimately to robust, executable protocol generation. Across multiple benchmarks, Thoth consistently surpasses both proprietary and open-source LLMs, achieving significant improvements in step alignment, logical sequencing, and semantic accuracy. Our approach paves the way for reliable scientific assistants that bridge knowledge with experimental execution. All data, code, and models will be released publicly.

Zekai Lin, Xu Zheng

360 panoramic images are increasingly used in virtual reality, autonomous driving, and robotics for holistic scene understanding. However, current Vision-Language Models (VLMs) struggle with 3D spatial reasoning on Equirectangular Projection (ERP) images due to geometric distortion and limited 3D supervision. We introduce PanoEnv, a large-scale VQA benchmark built from synthetic 3D environments, containing 14.8K questions across five categories (e.g., relative position, volume comparison) grounded in accurate 3D annotations including depth, segmentation, and bounding boxes. Benchmarking 14 state-of-the-art VLMs reveals limited 3D understanding, achieving only 49.34% overall accuracy and 8.36% on open-ended (OE) questions. To enhance 3D reasoning, we propose a reinforcement learning post-training framework based on Group Relative Policy Optimization (GRPO) with a ground-truth-guided reward that incorporates five geometry-aware strategies such as distance tolerance and spatial consistency. A two-stage curriculum further mitigates catastrophic forgetting: Stage 1 trains on structured tasks (true/false and multiple choice), and Stage 2 fine-tunes on mixed open-ended data to improve generalization. Our 7B model achieves new state-of-the-art performance, improving overall accuracy to 52.93% (+3.59%) and open-ended accuracy to 14.83% while maintaining structured-task performance. It also achieves top semantic evaluation scores (Q-Score 6.24, P-Score 5.95), surpassing 32B models. These results demonstrate that PanoEnv-QA and our curriculum-based RL framework effectively instill 3D spatial intelligence in VLMs for omnidirectional perception.

Yuhang Huang, Zekai Lin, Fan Zhong et al.

Explanations for AI models in high-stakes domains like medicine often lack verifiability, which can hinder trust. To address this, we propose an interactive agent that produces explanations through an auditable sequence of actions. The agent learns a policy to strategically seek external visual evidence to support its diagnostic reasoning. This policy is optimized using reinforcement learning, resulting in a model that is both efficient and generalizable. Our experiments show that this action-based reasoning process significantly improves calibrated accuracy, reducing the Brier score by 18\% compared to a non-interactive baseline. To validate the faithfulness of the agent's explanations, we introduce a causal intervention method. By masking the visual evidence the agent chooses to use, we observe a measurable degradation in its performance ($Δ$Brier=+0.029), confirming that the evidence is integral to its decision-making process. Our work provides a practical framework for building AI systems with verifiable and faithful reasoning capabilities.

Zekai Lin, Haoran Sun, Yucheng Guo et al.

Distinguishing pathogenic mutations from benign polymorphisms remains a critical challenge in precision medicine. EnTao-GPM, developed by Fudan University and BioMap, addresses this through three innovations: (1) Cross-species targeted pre-training on disease-relevant mammalian genomes (human, pig, mouse), leveraging evolutionary conservation to enhance interpretation of pathogenic motifs, particularly in non-coding regions; (2) Germline mutation specialization via fine-tuning on ClinVar and HGMD, improving accuracy for both SNVs and non-SNVs; (3) Interpretable clinical framework integrating DNA sequence embeddings with LLM-based statistical explanations to provide actionable insights. Validated against ClinVar, EnTao-GPM demonstrates superior accuracy in mutation classification. It revolutionizes genetic testing by enabling faster, more accurate, and accessible interpretation for clinical diagnostics (e.g., variant assessment, risk identification, personalized treatment) and research, advancing personalized medicine.