Related papers: Gene-R1: Reasoning with Data-Augmented Lightweight…

Large Language Models (LLMs) have shown promising performance on diverse medical benchmarks, highlighting their potential in supporting real-world clinical tasks. Retrieval-Augmented Generation (RAG) has emerged as a key approach for…

Large Language Models (LLMs) have demonstrated significant performance improvements across various cognitive tasks. An emerging application is using LLMs to enhance retrieval-augmented generation (RAG) capabilities. These systems require…

Designing therapeutic peptides with tailored properties is hindered by the vastness of sequence space, limited experimental data, and poor interpretability of current generative models. To address these challenges, we introduce PepThink-R1,…

Variant and gene interpretation are fundamental to personalized medicine and translational biomedicine. However, traditional approaches are manual and labor-intensive. Generative language models (LMs) can facilitate this process,…

Large language models (LLMs) have exhibited great potential in mathematical reasoning. However, there remains a performance gap in this area between existing open-source models and closed-source models such as GPT-4. In this paper, we…

Register-Transfer Level (RTL) verification is a primary bottleneck, consuming 60-70% of development time. While Large Language Models (LLMs) show promise for RTL automation, their performance and research focus have overwhelmingly centered…

Predicting cellular responses to genetic perturbations represents a fundamental challenge in systems biology, critical for advancing therapeutic discovery and virtual cell modeling. While large language models (LLMs) show promise for…

Recent advancements in Large Reasoning Models (LRMs), such as OpenAI's o1/o3 and DeepSeek-R1, have demonstrated remarkable performance in specialized reasoning tasks through human-like deliberative thinking and long chain-of-thought…

Large Language Models (LLMs) are increasingly adopted as conversational assistants in genomics, where they are mainly used to reason over biological knowledge, annotations, and analysis outputs through natural language interfaces. However,…

Large language models (LLMs) with explicit reasoning capabilities excel at mathematical reasoning yet still commit process errors, such as incorrect calculations, brittle logic, and superficially plausible but invalid steps. In this paper,…

Recent Large Language Models (LLMs) have significantly advanced natural language processing and automated decision-making. However, these models still encounter difficulties when performing complex reasoning tasks involving logical…

Test-time scaling has significantly improved large language model performance, enabling deeper reasoning to solve complex problems. However, this increased reasoning capability also leads to excessive token generation and unnecessary…

Personalization is a critical task in modern intelligent systems, with applications spanning diverse domains, including interactions with large language models (LLMs). Recent advances in reasoning capabilities have significantly enhanced…

As one of the most advanced techniques in AI, Retrieval-Augmented Generation (RAG) can offer reliable and up-to-date external knowledge, providing huge convenience for numerous tasks. Particularly in the era of AI-Generated Content (AIGC),…

Relation Extraction (RE) aims at recognizing the relation between pairs of entities mentioned in a text. Advances in LLMs have had a tremendous impact on NLP. In this work, we propose a textual data augmentation framework called PGA for…

Recent LLMs like DeepSeek-R1 have demonstrated state-of-the-art performance by integrating deep thinking and complex reasoning during generation. However, the internal mechanisms behind these reasoning processes remain unexplored. We…

Large language models (LLMs) have shown promise in medical domains, but their ability to handle specialized neurological reasoning requires systematic evaluation. We developed a comprehensive benchmark using 305 questions from Israeli Board…

Gene set knowledge discovery is essential for advancing human functional genomics. Recent studies have shown promising performance by harnessing the power of Large Language Models (LLMs) on this task. Nonetheless, their results are subject…

The rapid growth of medical knowledge and increasing complexity of clinical practice pose challenges. In this context, large language models (LLMs) have demonstrated value; however, inherent limitations remain. Retrieval-augmented…

Large Language Models (LLMs) have shown remarkable capabilities in reasoning, exemplified by the success of OpenAI-o1 and DeepSeek-R1. However, integrating reasoning with external search processes remains challenging, especially for complex…