The rapid development of Multimodal Large Reasoning Models (MLRMs) has demonstrated broad application potential, yet their safety and reliability remain critical concerns that require systematic exploration. To address this gap, we conduct a comprehensive and systematic safety evaluation of 13 MLRMs across 5 benchmarks and unveil prevalent safety degradation phenomena in most advanced models. Moreover, our analysis reveals distinct safety patterns across different benchmarks: significant safety degradation is observed across jailbreak robustness benchmarks, whereas safety-awareness benchmarks demonstrate less pronounced degradation. In particular, the long thought process in some scenarios even enhances safety performance. Therefore, it is a potential approach to address safety issues in MLRMs by leveraging the intrinsic reasoning capabilities of the model to detect unsafe intent. To operationalize this insight, we construct a multimodal tuning dataset that incorporates a safety-oriented thought process. Experimental results from fine-tuning existing MLRMs with this dataset effectively enhance the safety on both jailbreak robustness and safety-awareness benchmarks. This study provides a new perspective for developing safe MLRMs.

Large Language Models (LLMs) are revolutionizing bioinformatics, enabling advanced analysis of DNA, RNA, proteins, and single-cell data. This survey provides a systematic review of recent advancements, focusing on genomic sequence modeling, RNA structure prediction, protein function inference, and single-cell transcriptomics. Meanwhile, we also discuss several key challenges, including data scarcity, computational complexity, and cross-omics integration, and explore future directions such as multimodal learning, hybrid AI models, and clinical applications. By offering a comprehensive perspective, this paper underscores the transformative potential of LLMs in driving innovations in bioinformatics and precision medicine.

Proteins are critical for various molecular functions, relying on their precise tertiary structures. This structure-sequence relationship is complex and degenerate, meaning multiple sequences can fold into a similar structure. The challenges in protein prediction, design, and modification increase with sequence complexity, while research on RNA-protein interactions, especially RNA-binding proteins (RBPs), is gaining importance. Large-scale pre-trained language models (LLMs) have shown promising results in handling biological sequences by treating them as natural language, though integrating spatial structures remains complex due to the need for specialized visual and 3D modeling approaches. We introduce a method to integrate protein 3D structural data within a sequence processing framework, converting 3D coordinates into discrete structure tokens using a VQ-VAE-like network. This simplifies the handling of 3D data, avoiding complex pipelines and facilitating a unified sequence-to-sequence processing model. Our approach demonstrates strong performance across a range of tasks, achieving high sequence recovery in inverse folding and protein-conditioned RNA design. These outstanding results demonstrate significant potential for application in complex biological systems research.

“k-最近邻机器翻译(kNN-MT)是近年来神经机器翻译领域的一个重要研究方向。此类方法可以在不更新机器翻译模型的情况下提高翻译质量,但训练数据中高低频单词的数量不均衡限制了模型效果,且固定的k值无法对处于不同密度分布的数据都产生良好的翻译结果。为此本文提出了一种创新的kNN-MT方法,引入确定性因子(CF)来降低数据不均衡对模型效果的影响,并根据测试点周边数据密度动态选择k值。在多领域德-英翻译数据集上,相比基线实验,本方法在四个领域上翻译效果均有提升,其中三个领域上提升超过1个BLEU,有效提高了神经机器翻译模型的翻译质量。”