Retrieving the biological impacts of protein-protein interactions (PPIs) is essential for target identification (Target ID) in drug development. Given the vast number of proteins involved, this process remains time-consuming and challenging. Large Language Models (LLMs) and Retrieval-Augmented Generation (RAG) frameworks have supported Target ID; however, no benchmark currently exists for identifying the biological impacts of PPIs. To bridge this gap, we introduce the RAG Benchmark for PPIs (RAGPPI), a factual question-answer benchmark of 4,420 question-answer pairs that focus on the potential biological impacts of PPIs. Through interviews with experts, we identified criteria for a benchmark dataset, such as a type of QA and source. We built a gold-standard dataset (500 QA pairs) through expert-driven data annotation. We developed an ensemble auto-evaluation LLM that reflected expert labeling characteristics, which facilitates the construction of a silver-standard dataset (3,720 QA pairs). We are committed to maintaining RAGPPI as a resource to support the research community in advancing RAG systems for drug discovery QA solutions.
Reinforcement learning (RL) in autonomous driving employs a trial-and-error mechanism, enhancing robustness in unpredictable environments. However, crafting effective reward functions remains challenging, as conventional approaches rely heavily on manual design and demonstrate limited efficacy in complex scenarios. To address this issue, this study introduces a responsibility-oriented reward function that explicitly incorporates traffic regulations into the RL framework. Specifically, we introduced a Traffic Regulation Knowledge Graph and leveraged Vision-Language Models alongside Retrieval-Augmented Generation techniques to automate reward assignment. This integration guides agents to adhere strictly to traffic laws, thus minimizing rule violations and optimizing decision-making performance in diverse driving conditions. Experimental validations demonstrate that the proposed methodology significantly improves the accuracy of assigning accident responsibilities and effectively reduces the agent's liability in traffic incidents.
Large language models (LLMs) exhibit extensive medical knowledge but are prone to hallucinations and inaccurate citations, which pose a challenge to their clinical adoption and regulatory compliance. Current methods, such as Retrieval Augmented Generation, partially address these issues by grounding answers in source documents, but hallucinations and low fact-level explainability persist. In this work, we introduce a novel atomic fact-checking framework designed to enhance the reliability and explainability of LLMs used in medical long-form question answering. This method decomposes LLM-generated responses into discrete, verifiable units called atomic facts, each of which is independently verified against an authoritative knowledge base of medical guidelines. This approach enables targeted correction of errors and direct tracing to source literature, thereby improving the factual accuracy and explainability of medical Q&A. Extensive evaluation using multi-reader assessments by medical experts and an automated open Q&A benchmark demonstrated significant improvements in factual accuracy and explainability. Our framework achieved up to a 40% overall answer improvement and a 50% hallucination detection rate. The ability to trace each atomic fact back to the most relevant chunks from the database provides a granular, transparent explanation of the generated responses, addressing a major gap in current medical AI applications. This work represents a crucial step towards more trustworthy and reliable clinical applications of LLMs, addressing key prerequisites for clinical application and fostering greater confidence in AI-assisted healthcare.
Integrating Large Language Models (LLMs) with Knowledge Graphs (KGs) results in complex systems with numerous hyperparameters that directly affect performance. While such systems are increasingly common in retrieval-augmented generation, the role of systematic hyperparameter optimization remains underexplored. In this paper, we study this problem in the context of Cognee, a modular framework for end-to-end KG construction and retrieval. Using three multi-hop QA benchmarks (HotPotQA, TwoWikiMultiHop, and MuSiQue) we optimize parameters related to chunking, graph construction, retrieval, and prompting. Each configuration is scored using established metrics (exact match, F1, and DeepEval's LLM-based correctness metric). Our results demonstrate that meaningful gains can be achieved through targeted tuning. While the gains are consistent, they are not uniform, with performance varying across datasets and metrics. This variability highlights both the value of tuning and the limitations of standard evaluation measures. While demonstrating the immediate potential of hyperparameter tuning, we argue that future progress will depend not only on architectural advances but also on clearer frameworks for optimization and evaluation in complex, modular systems.
Large Vision-Language Models (LVLMs) have made remarkable strides in multimodal tasks such as visual question answering, visual grounding, and complex reasoning. However, they remain limited by static training data, susceptibility to hallucinations, and inability to verify claims against up-to-date, external evidence, compromising their performance in dynamic real-world applications. Retrieval-Augmented Generation (RAG) offers a practical solution to mitigate these challenges by allowing the LVLMs to access large-scale knowledge databases via retrieval mechanisms, thereby grounding model outputs in factual, contextually relevant information. Here in this paper, we conduct the first systematic dissection of the multimodal RAG pipeline for LVLMs, explicitly investigating (1) the retrieval phase: on the modality configurations and retrieval strategies, (2) the re-ranking stage: on strategies to mitigate positional biases and improve the relevance of retrieved evidence, and (3) the generation phase: we further investigate how to best integrate retrieved candidates into the final generation process. Finally, we extend to explore a unified agentic framework that integrates re-ranking and generation through self-reflection, enabling LVLMs to select relevant evidence and suppress irrelevant context dynamically. Our full-stack exploration of RAG for LVLMs yields substantial insights, resulting in an average performance boost of 5% without any fine-tuning.
To effectively engage in human society, the ability to adapt, filter information, and make informed decisions in ever-changing situations is critical. As robots and intelligent agents become more integrated into human life, there is a growing opportunity-and need-to offload the cognitive burden on humans to these systems, particularly in dynamic, information-rich scenarios. To fill this critical need, we present Multi-RAG, a multimodal retrieval-augmented generation system designed to provide adaptive assistance to humans in information-intensive circumstances. Our system aims to improve situational understanding and reduce cognitive load by integrating and reasoning over multi-source information streams, including video, audio, and text. As an enabling step toward long-term human-robot partnerships, Multi-RAG explores how multimodal information understanding can serve as a foundation for adaptive robotic assistance in dynamic, human-centered situations. To evaluate its capability in a realistic human-assistance proxy task, we benchmarked Multi-RAG on the MMBench-Video dataset, a challenging multimodal video understanding benchmark. Our system achieves superior performance compared to existing open-source video large language models (Video-LLMs) and large vision-language models (LVLMs), while utilizing fewer resources and less input data. The results demonstrate Multi- RAG's potential as a practical and efficient foundation for future human-robot adaptive assistance systems in dynamic, real-world contexts.
Retrieval-Augmented Generation (RAG) integrates external knowledge with Large Language Models (LLMs) to enhance factual correctness and mitigate hallucination. However, dense retrievers often become the bottleneck of RAG systems due to their limited parameters compared to LLMs and their inability to perform step-by-step reasoning. While prompt-based iterative RAG attempts to address these limitations, it is constrained by human-designed workflows. To address these limitations, we propose $\textbf{R3-RAG}$, which uses $\textbf{R}$einforcement learning to make the LLM learn how to $\textbf{R}$eason and $\textbf{R}$etrieve step by step, thus retrieving comprehensive external knowledge and leading to correct answers. R3-RAG is divided into two stages. We first use cold start to make the model learn the manner of iteratively interleaving reasoning and retrieval. Then we use reinforcement learning to further harness its ability to better explore the external retrieval environment. Specifically, we propose two rewards for R3-RAG: 1) answer correctness for outcome reward, which judges whether the trajectory leads to a correct answer; 2) relevance-based document verification for process reward, encouraging the model to retrieve documents that are relevant to the user question, through which we can let the model learn how to iteratively reason and retrieve relevant documents to get the correct answer. Experimental results show that R3-RAG significantly outperforms baselines and can transfer well to different retrievers. We release R3-RAG at https://github.com/Yuan-Li-FNLP/R3-RAG.
Learning-based planners generate natural human-like driving behaviors by learning to reason about nuanced interactions from data, overcoming the rigid behaviors that arise from rule-based planners. Nonetheless, data-driven approaches often struggle with rare, safety-critical scenarios and offer limited controllability over the generated trajectories. To address these challenges, we propose RealDrive, a Retrieval-Augmented Generation (RAG) framework that initializes a diffusion-based planning policy by retrieving the most relevant expert demonstrations from the training dataset. By interpolating between current observations and retrieved examples through a denoising process, our approach enables fine-grained control and safe behavior across diverse scenarios, leveraging the strong prior provided by the retrieved scenario. Another key insight we produce is that a task-relevant retrieval model trained with planning-based objectives results in superior planning performance in our framework compared to a task-agnostic retriever. Experimental results demonstrate improved generalization to long-tail events and enhanced trajectory diversity compared to standard learning-based planners -- we observe a 40% reduction in collision rate on the Waymo Open Motion dataset with RAG.
Large Language Models (LLMs) have shown great potential in automated story generation, but challenges remain in maintaining long-form coherence and providing users with intuitive and effective control. Retrieval-Augmented Generation (RAG) has proven effective in reducing hallucinations in text generation; however, the use of structured data to support generative storytelling remains underexplored. This paper investigates how knowledge graphs (KGs) can enhance LLM-based storytelling by improving narrative quality and enabling user-driven modifications. We propose a KG-assisted storytelling pipeline and evaluate its effectiveness through a user study with 15 participants. Participants created their own story prompts, generated stories, and edited knowledge graphs to shape their narratives. Through quantitative and qualitative analysis, our findings demonstrate that knowledge graphs significantly enhance story quality in action-oriented and structured narratives within our system settings. Additionally, editing the knowledge graph increases users' sense of control, making storytelling more engaging, interactive, and playful.
While Retrieval-Augmented Generation (RAG) has emerged as an effective approach for addressing the knowledge outdating problem in Large Language Models (LLMs), it faces a critical challenge: the prevalence of outdated information in knowledge bases. Current research primarily focuses on incorporating up-to-date information, yet the impact of outdated information coexisting in retrieval sources remains inadequately addressed. To bridge this gap, we introduce HoH, the first benchmark specifically designed to evaluate the impact of outdated information on RAG. Our benchmark leverages token-level diff algorithms combined with LLM pipelines to efficiently create a large-scale QA dataset that accurately captures temporal knowledge evolution in real-world facts. Through comprehensive experiments, we reveal that outdated information significantly degrades RAG performance in two critical ways: (1) it substantially reduces response accuracy by distracting models from correct information, and (2) it can mislead models into generating potentially harmful outputs, even when current information is available. Current RAG approaches struggle with both retrieval and generation aspects when handling outdated information. These findings highlight the urgent need for innovative solutions to address the temporal challenges in RAG.
Tracking financial investments in climate adaptation is a complex and expertise-intensive task, particularly for Early Warning Systems (EWS), which lack standardized financial reporting across multilateral development banks (MDBs) and funds. To address this challenge, we introduce an LLM-based agentic AI system that integrates contextual retrieval, fine-tuning, and multi-step reasoning to extract relevant financial data, classify investments, and ensure compliance with funding guidelines. Our study focuses on a real-world application: tracking EWS investments in the Climate Risk and Early Warning Systems (CREWS) Fund. We analyze 25 MDB project documents and evaluate multiple AI-driven classification methods, including zero-shot and few-shot learning, fine-tuned transformer-based classifiers, chain-of-thought (CoT) prompting, and an agent-based retrieval-augmented generation (RAG) approach. Our results show that the agent-based RAG approach significantly outperforms other methods, achieving 87\% accuracy, 89\% precision, and 83\% recall. Additionally, we contribute a benchmark dataset and expert-annotated corpus, providing a valuable resource for future research in AI-driven financial tracking and climate finance transparency.
Large Language Models (LLMs) have demonstrated remarkable prowess in generating contextually coherent responses, yet their fixed context windows pose fundamental challenges for maintaining consistency over prolonged multi-session dialogues. We introduce Mem0, a scalable memory-centric architecture that addresses this issue by dynamically extracting, consolidating, and retrieving salient information from ongoing conversations. Building on this foundation, we further propose an enhanced variant that leverages graph-based memory representations to capture complex relational structures among conversational elements. Through comprehensive evaluations on LOCOMO benchmark, we systematically compare our approaches against six baseline categories: (i) established memory-augmented systems, (ii) retrieval-augmented generation (RAG) with varying chunk sizes and k-values, (iii) a full-context approach that processes the entire conversation history, (iv) an open-source memory solution, (v) a proprietary model system, and (vi) a dedicated memory management platform. Empirical results show that our methods consistently outperform all existing memory systems across four question categories: single-hop, temporal, multi-hop, and open-domain. Notably, Mem0 achieves 26% relative improvements in the LLM-as-a-Judge metric over OpenAI, while Mem0 with graph memory achieves around 2% higher overall score than the base configuration. Beyond accuracy gains, we also markedly reduce computational overhead compared to full-context method. In particular, Mem0 attains a 91% lower p95 latency and saves more than 90% token cost, offering a compelling balance between advanced reasoning capabilities and practical deployment constraints. Our findings highlight critical role of structured, persistent memory mechanisms for long-term conversational coherence, paving the way for more reliable and efficient LLM-driven AI agents.
This paper introduces a novel integration of Retrieval-Augmented Generation (RAG) enhanced Large Language Models (LLMs) with Extended Reality (XR) technologies to address knowledge transfer challenges in industrial environments. The proposed system embeds domain-specific industrial knowledge into XR environments through a natural language interface, enabling hands-free, context-aware expert guidance for workers. We present the architecture of the proposed system consisting of an LLM Chat Engine with dynamic tool orchestration and an XR application featuring voice-driven interaction. Performance evaluation of various chunking strategies, embedding models, and vector databases reveals that semantic chunking, balanced embedding models, and efficient vector stores deliver optimal performance for industrial knowledge retrieval. The system's potential is demonstrated through early implementation in multiple industrial use cases, including robotic assembly, smart infrastructure maintenance, and aerospace component servicing. Results indicate potential for enhancing training efficiency, remote assistance capabilities, and operational guidance in alignment with Industry 5.0's human-centric and resilient approach to industrial development.
Large Language Models (LLMs) and Retrieval-Augmented Generation (RAG) systems are increasingly deployed in industry applications, yet their reliability remains hampered by challenges in detecting hallucinations. While supervised state-of-the-art (SOTA) methods that leverage LLM hidden states -- such as activation tracing and representation analysis -- show promise, their dependence on extensively annotated datasets limits scalability in real-world applications. This paper addresses the critical bottleneck of data annotation by investigating the feasibility of reducing training data requirements for two SOTA hallucination detection frameworks: Lookback Lens, which analyzes attention head dynamics, and probing-based approaches, which decode internal model representations. We propose a methodology combining efficient classification algorithms with dimensionality reduction techniques to minimize sample size demands while maintaining competitive performance. Evaluations on standardized question-answering RAG benchmarks show that our approach achieves performance comparable to strong proprietary LLM-based baselines with only 250 training samples. These results highlight the potential of lightweight, data-efficient paradigms for industrial deployment, particularly in annotation-constrained scenarios.
Retrieval-Augmented Generation (RAG) significantly improves the performance of Large Language Models (LLMs) on knowledge-intensive tasks. However, varying response quality across LLMs under RAG necessitates intelligent routing mechanisms, which select the most suitable model for each query from multiple retrieval-augmented LLMs via a dedicated router model. We observe that external documents dynamically affect LLMs' ability to answer queries, while existing routing methods, which rely on static parametric knowledge representations, exhibit suboptimal performance in RAG scenarios. To address this, we formally define the new retrieval-augmented LLM routing problem, incorporating the influence of retrieved documents into the routing framework. We propose RAGRouter, a RAG-aware routing design, which leverages document embeddings and RAG capability embeddings with contrastive learning to capture knowledge representation shifts and enable informed routing decisions. Extensive experiments on diverse knowledge-intensive tasks and retrieval settings show that RAGRouter outperforms the best individual LLM by 3.61% on average and existing routing methods by 3.29%-9.33%. With an extended score-threshold-based mechanism, it also achieves strong performance-efficiency trade-offs under low-latency constraints.
Climate Finance Bench introduces an open benchmark that targets question-answering over corporate climate disclosures using Large Language Models. We curate 33 recent sustainability reports in English drawn from companies across all 11 GICS sectors and annotate 330 expert-validated question-answer pairs that span pure extraction, numerical reasoning, and logical reasoning. Building on this dataset, we propose a comparison of RAG (retrieval-augmented generation) approaches. We show that the retriever's ability to locate passages that actually contain the answer is the chief performance bottleneck. We further argue for transparent carbon reporting in AI-for-climate applications, highlighting advantages of techniques such as Weight Quantization.
Text-to-image generation increasingly demands access to domain-specific, fine-grained, and rapidly evolving knowledge that pretrained models cannot fully capture. Existing Retrieval-Augmented Generation (RAG) methods attempt to address this by retrieving globally relevant images, but they fail when no single image contains all desired elements from a complex user query. We propose Cross-modal RAG, a novel framework that decomposes both queries and images into sub-dimensional components, enabling subquery-aware retrieval and generation. Our method introduces a hybrid retrieval strategy - combining a sub-dimensional sparse retriever with a dense retriever - to identify a Pareto-optimal set of images, each contributing complementary aspects of the query. During generation, a multimodal large language model is guided to selectively condition on relevant visual features aligned to specific subqueries, ensuring subquery-aware image synthesis. Extensive experiments on MS-COCO, Flickr30K, WikiArt, CUB, and ImageNet-LT demonstrate that Cross-modal RAG significantly outperforms existing baselines in both retrieval and generation quality, while maintaining high efficiency.
Chunking is a crucial preprocessing step in retrieval-augmented generation (RAG) systems, significantly impacting retrieval effectiveness across diverse datasets. In this study, we systematically evaluate fixed-size chunking strategies and their influence on retrieval performance using multiple embedding models. Our experiments, conducted on both short-form and long-form datasets, reveal that chunk size plays a critical role in retrieval effectiveness -- smaller chunks (64-128 tokens) are optimal for datasets with concise, fact-based answers, whereas larger chunks (512-1024 tokens) improve retrieval in datasets requiring broader contextual understanding. We also analyze the impact of chunking on different embedding models, finding that they exhibit distinct chunking sensitivities. While models like Stella benefit from larger chunks, leveraging global context for long-range retrieval, Snowflake performs better with smaller chunks, excelling at fine-grained, entity-based matching. Our results underscore the trade-offs between chunk size, embedding models, and dataset characteristics, emphasizing the need for improved chunk quality measures, and more comprehensive datasets to advance chunk-based retrieval in long-document Information Retrieval (IR).
The model context protocol (MCP) has been widely adapted as an open standard enabling the seamless integration of generative AI agents. However, recent work has shown the MCP is susceptible to retrieval-based "falsely benign" attacks (FBAs), allowing malicious system access and credential theft, but requiring that users download compromised files directly to their systems. Herein, we show that the threat model of MCP-based attacks is significantly broader than previously thought, i.e., attackers need only post malicious content online to deceive MCP agents into carrying out their attacks on unsuspecting victims' systems. To improve alignment guardrails against such attacks, we introduce a new MCP dataset of FBAs and (truly) benign samples to explore the effectiveness of direct preference optimization (DPO) for the refusal training of large language models (LLMs). While DPO improves model guardrails against such attacks, we show that the efficacy of refusal learning varies drastically depending on the model's original post-training alignment scheme--e.g., GRPO-based LLMs learn to refuse extremely poorly. Thus, to further improve FBA refusals, we introduce Retrieval Augmented Generation for Preference alignment (RAG-Pref), a novel preference alignment strategy based on RAG. We show that RAG-Pref significantly improves the ability of LLMs to refuse FBAs, particularly when combined with DPO alignment, thus drastically improving guardrails against MCP-based attacks.
As a social being, we have an intimate bond with the environment. A plethora of things in human life, such as lifestyle, health, and food are dependent on the environment and agriculture. It comes under our responsibility to support the environment as well as agriculture. However, traditional farming practices often result in inefficient resource use and environmental challenges. To address these issues, precision agriculture has emerged as a promising approach that leverages advanced technologies to optimise agricultural processes. In this work, a hybrid approach is proposed that combines the three different potential fields of model AI: object detection, large language model (LLM), and Retrieval-Augmented Generation (RAG). In this novel framework, we have tried to combine the vision and language models to work together to identify potential diseases in the tree leaf. This study introduces a novel AI-based precision agriculture system that uses Retrieval Augmented Generation (RAG) to provide context-aware diagnoses and natural language processing (NLP) and YOLOv8 for crop disease detection. The system aims to tackle major issues with large language models (LLMs), especially hallucinations and allows for adaptive treatment plans and real-time disease detection. The system provides an easy-to-use interface to the farmers, which they can use to detect the different diseases related to coffee leaves by just submitting the image of the affected leaf the model will detect the diseases as well as suggest potential remediation methodologies which aim to lower the use of pesticides, preserving livelihoods, and encouraging environmentally friendly methods. With an emphasis on scalability, dependability, and user-friendliness, the project intends to improve RAG-integrated object detection systems for wider agricultural applications in the future.