Daily Papers

Retrieval-augmented generation (RAG) is now standard for knowledge-intensive LLM tasks, but most systems still treat every query as fresh, repeatedly re-retrieving long passages and re-reasoning from scratch, inflating tokens, latency, and cost. We present AutoPrunedRetriever, a graph-style RAG system that persists the minimal reasoning subgraph built for earlier questions and incrementally extends it for later ones. AutoPrunedRetriever stores entities and relations in a compact, ID-indexed codebook and represents questions, facts, and answers as edge sequences, enabling retrieval and prompting over symbolic structure instead of raw text. To keep the graph compact, we apply a two-layer consolidation policy (fast ANN/KNN alias detection plus selective k-means once a memory threshold is reached) and prune low-value structure, while prompts retain only overlap representatives and genuinely new evidence. We instantiate two front ends: AutoPrunedRetriever-REBEL, which uses REBEL as a triplet parser, and AutoPrunedRetriever-llm, which swaps in an LLM extractor. On GraphRAG-Benchmark (Medical and Novel), both variants achieve state-of-the-art complex reasoning accuracy, improving over HippoRAG2 by roughly 9--11 points, and remain competitive on contextual summarize and generation. On our harder STEM and TV benchmarks, AutoPrunedRetriever again ranks first, while using up to two orders of magnitude fewer tokens than graph-heavy baselines, making it a practical substrate for long-running sessions, evolving corpora, and multi-agent pipelines.

Graph retrieval-augmented generation (GraphRAG) has emerged as a powerful paradigm for enhancing large language models (LLMs) with external knowledge. It leverages graphs to model the hierarchical structure between specific concepts, enabling more coherent and effective knowledge retrieval for accurate reasoning.Despite its conceptual promise, recent studies report that GraphRAG frequently underperforms vanilla RAG on many real-world tasks. This raises a critical question: Is GraphRAG really effective, and in which scenarios do graph structures provide measurable benefits for RAG systems? To address this, we propose GraphRAG-Bench, a comprehensive benchmark designed to evaluate GraphRAG models onboth hierarchical knowledge retrieval and deep contextual reasoning. GraphRAG-Bench features a comprehensive dataset with tasks of increasing difficulty, coveringfact retrieval, complex reasoning, contextual summarization, and creative generation, and a systematic evaluation across the entire pipeline, from graph constructionand knowledge retrieval to final generation. Leveraging this novel benchmark, we systematically investigate the conditions when GraphRAG surpasses traditional RAG and the underlying reasons for its success, offering guidelines for its practical application. All related resources and analyses are collected for the community at https://github.com/GraphRAG-Bench/GraphRAG-Benchmark.

Graph-based Retrieval-Augmented Generation (GraphRAG) organizes external knowledge as a hierarchical graph, enabling efficient retrieval and aggregation of scattered evidence across multiple documents. However, many existing benchmarks for GraphRAG rely on short, curated passages as external knowledge, failing to adequately evaluate systems in realistic settings involving long contexts and large-scale heterogeneous documents. To bridge this gap, we introduce WildGraphBench, a benchmark designed to assess GraphRAG performance in the wild. We leverage Wikipedia's unique structure, where cohesive narratives are grounded in long and heterogeneous external reference documents, to construct a benchmark reflecting real-word scenarios. Specifically, we sample articles across 12 top-level topics, using their external references as the retrieval corpus and citation-linked statements as ground truth, resulting in 1,100 questions spanning three levels of complexity: single-fact QA, multi-fact QA, and section-level summarization. Experiments across multiple baselines reveal that current GraphRAG pipelines help on multi-fact aggregation when evidence comes from a moderate number of sources, but this aggregation paradigm may overemphasize high-level statements at the expense of fine-grained details, leading to weaker performance on summarization tasks. Project page:https://github.com/BstWPY/WildGraphBench.

Graph retrieval-augmented generation (GraphRAG) has effectively enhanced large language models in complex reasoning by organizing fragmented knowledge into explicitly structured graphs. Prior efforts have been made to improve either graph construction or graph retrieval in isolation, yielding suboptimal performance, especially when domain shifts occur. In this paper, we propose a vertically unified agentic paradigm, Youtu-GraphRAG, to jointly connect the entire framework as an intricate integration. Specifically, (i) a seed graph schema is introduced to bound the automatic extraction agent with targeted entity types, relations and attribute types, also continuously expanded for scalability over unseen domains; (ii) To obtain higher-level knowledge upon the schema, we develop novel dually-perceived community detection, fusing structural topology with subgraph semantics for comprehensive knowledge organization. This naturally yields a hierarchical knowledge tree that supports both top-down filtering and bottom-up reasoning with community summaries; (iii) An agentic retriever is designed to interpret the same graph schema to transform complex queries into tractable and parallel sub-queries. It iteratively performs reflection for more advanced reasoning; (iv) To alleviate the knowledge leaking problem in pre-trained LLM, we propose a tailored anonymous dataset and a novel 'Anonymity Reversion' task that deeply measures the real performance of the GraphRAG frameworks. Extensive experiments across six challenging benchmarks demonstrate the robustness of Youtu-GraphRAG, remarkably moving the Pareto frontier with up to 90.71% saving of token costs and 16.62% higher accuracy over state-of-the-art baselines. The results indicate our adaptability, allowing seamless domain transfer with minimal intervention on schema.

Knowledge Graph (KG)-augmented Large Language Models (LLMs) have recently propelled significant advances in complex reasoning tasks, thanks to their broad domain knowledge and contextual awareness. Unfortunately, current methods often assume KGs to be complete, which is impractical given the inherent limitations of KG construction and the potential loss of contextual cues when converting unstructured text into entity-relation triples. In response, this paper proposes the Triple Context Restoration and Query-driven Feedback (TCR-QF) framework, which reconstructs the textual context underlying each triple to mitigate information loss, while dynamically refining the KG structure by iteratively incorporating query-relevant missing knowledge. Experiments on five benchmark question-answering datasets substantiate the effectiveness of TCR-QF in KG and LLM integration, where itachieves a 29.1% improvement in Exact Match and a 15.5% improvement in F1 over its state-of-the-art GraphRAG competitors.

Graph-based Retrieval-Augmented Generation (GraphRAG) mitigates hallucinations in Large Language Models (LLMs) by grounding them in structured knowledge. However, current GraphRAG methods are constrained by a prevailing build-then-reason paradigm, which relies on a static, pre-constructed Knowledge Graph (KG). This paradigm faces two critical challenges. First, the KG's inherent incompleteness often breaks reasoning paths. Second, the graph's low signal-to-noise ratio introduces distractor facts, presenting query-relevant but misleading knowledge that disrupts the reasoning process. To address these challenges, we argue for a reason-and-construct paradigm and propose Relink, a framework that dynamically builds a query-specific evidence graph. To tackle incompleteness, Relink instantiates required facts from a latent relation pool derived from the original text corpus, repairing broken paths on the fly. To handle misleading or distractor facts, Relink employs a unified, query-aware evaluation strategy that jointly considers candidates from both the KG and latent relations, selecting those most useful for answering the query rather than relying on their pre-existence. This empowers Relink to actively discard distractor facts and construct the most faithful and precise evidence path for each query. Extensive experiments on five Open-Domain Question Answering benchmarks show that Relink achieves significant average improvements of 5.4\% in EM and 5.2\% in F1 over leading GraphRAG baselines, demonstrating the superiority of our proposed framework.

Retrieval-Augmented Generation (RAG) enhances the performance of LLMs across various tasks by retrieving relevant information from external sources, particularly on text-based data. For structured data, such as knowledge graphs, GraphRAG has been widely used to retrieve relevant information. However, recent studies have revealed that structuring implicit knowledge from text into graphs can benefit certain tasks, extending the application of GraphRAG from graph data to general text-based data. Despite their successful extensions, most applications of GraphRAG for text data have been designed for specific tasks and datasets, lacking a systematic evaluation and comparison between RAG and GraphRAG on widely used text-based benchmarks. In this paper, we systematically evaluate RAG and GraphRAG on well-established benchmark tasks, such as Question Answering and Query-based Summarization. Our results highlight the distinct strengths of RAG and GraphRAG across different tasks and evaluation perspectives. Inspired by these observations, we investigate strategies to integrate their strengths to improve downstream tasks. Additionally, we provide an in-depth discussion of the shortcomings of current GraphRAG approaches and outline directions for future research.

Retrieval-Augmented Generation (RAG) has become a robust framework for enhancing Large Language Models (LLMs) with external knowledge. Recent advances in RAG have investigated graph based retrieval for intricate reasoning; however, the influence of prompt design on enhancing the retrieval and reasoning process is still considerably under-examined. In this paper, we present a prompt-driven GraphRAG framework that underscores the significance of prompt formulation in facilitating entity extraction, fact selection, and passage reranking for multi-hop question answering. Our approach creates a symbolic knowledge graph from text data by encoding entities and factual relationships as structured facts triples. We use LLMs selectively during online retrieval to perform semantic filtering and answer generation. We also use entity-guided graph traversal through Personalized PageRank (PPR) to support efficient, scalable retrieval based on the knowledge graph we built. Our system gets state-of-the-art performance on HotpotQA and 2WikiMultiHopQA, with F1 scores of 80.7% and 78.9%, and Recall@5 scores of 97.1% and 98.1%, respectively. These results show that prompt design is an important part of improving retrieval accuracy and response quality. This research lays the groundwork for more efficient and comprehensible multi-hop question-answering systems, highlighting the importance of prompt-aware graph reasoning.

Large Language Models (LLMs) often struggle with inherent knowledge boundaries and hallucinations, limiting their reliability in knowledge-intensive tasks. While Retrieval-Augmented Generation (RAG) mitigates these issues, it frequently overlooks structural interdependencies essential for multi-hop reasoning. Graph-based RAG approaches attempt to bridge this gap, yet they typically face trade-offs between accuracy and efficiency due to challenges such as costly graph traversals and semantic noise in LLM-generated summaries. In this paper, we propose HyperNode Expansion and Logical Path-Guided Evidence Localization strategies for GraphRAG (HELP), a novel framework designed to balance accuracy with practical efficiency through two core strategies: 1) HyperNode Expansion, which iteratively chains knowledge triplets into coherent reasoning paths abstracted as HyperNodes to capture complex structural dependencies and ensure retrieval accuracy; and 2) Logical Path-Guided Evidence Localization, which leverages precomputed graph-text correlations to map these paths directly to the corpus for superior efficiency. HELP avoids expensive random walks and semantic distortion, preserving knowledge integrity while drastically reducing retrieval latency. Extensive experiments demonstrate that HELP achieves competitive performance across multiple simple and multi-hop QA benchmarks and up to a 28.8times speedup over leading Graph-based RAG baselines.

Graph-based Retrieval-Augmented Generation (GraphRAG) enhances the reasoning capabilities of Large Language Models (LLMs) by grounding their responses in structured knowledge graphs. Leveraging community detection and relation filtering techniques, GraphRAG systems demonstrate inherent resistance to traditional RAG attacks, such as text poisoning and prompt injection. However, in this paper, we find that the security of GraphRAG systems fundamentally relies on the topological integrity of the underlying graph, which can be undermined by implicitly corrupting the logical connections, without altering surface-level text semantics. To exploit this vulnerability, we propose LogicPoison, a novel attack framework that targets logical reasoning rather than injecting false contents. Specifically, LogicPoison employs a type-preserving entity swapping mechanism to perturb both global logic hubs for disrupting overall graph connectivity and query-specific reasoning bridges for severing essential multi-hop inference paths. This approach effectively reroutes valid reasoning into dead ends while maintaining surface-level textual plausibility. Comprehensive experiments across multiple benchmarks demonstrate that LogicPoison successfully bypasses GraphRAG's defenses, significantly degrading performance and outperforming state-of-the-art baselines in both effectiveness and stealth. Our code is available at bluehttps://github.com/Jord8061/logicPoison.

Large Language Models (LLMs) increasingly rely on agentic capabilities-iterative retrieval, tool use, and decision-making-to overcome the limits of static, parametric knowledge. Yet existing agentic frameworks treat external information as unstructured text and fail to leverage the topological dependencies inherent in real-world data. To bridge this gap, we introduce Agentic Graph Learning (AGL), a paradigm that reframes graph learning as an interleaved process of topology-aware navigation and LLM-based inference. Specifically, we propose AgentGL, the first reinforcement learning (RL)-driven framework for AGL. AgentGL equips an LLM agent with graph-native tools for multi-scale exploration, regulates tool usage via search-constrained thinking to balance accuracy and efficiency, and employs a graph-conditioned curriculum RL strategy to stabilize long-horizon policy learning without step-wise supervision. Across diverse Text-Attributed Graph (TAG) benchmarks and multiple LLM backbones, AgentGL substantially outperforms strong GraphLLMs and GraphRAG baselines, achieving absolute improvements of up to 17.5% in node classification and 28.4% in link prediction. These results demonstrate that AGL is a promising frontier for enabling LLMs to autonomously navigate and reason over complex relational environments. The code is publicly available at https://github.com/sunyuanfu/AgentGL.

Retrieval-augmented generation (RAG) empowers large language models to access external and private corpus, enabling factually consistent responses in specific domains. By exploiting the inherent structure of the corpus, graph-based RAG methods further enrich this process by building a knowledge graph index and leveraging the structural nature of graphs. However, current graph-based RAG approaches seldom prioritize the design of graph structures. Inadequately designed graph not only impede the seamless integration of diverse graph algorithms but also result in workflow inconsistencies and degraded performance. To further unleash the potential of graph for RAG, we propose NodeRAG, a graph-centric framework introducing heterogeneous graph structures that enable the seamless and holistic integration of graph-based methodologies into the RAG workflow. By aligning closely with the capabilities of LLMs, this framework ensures a fully cohesive and efficient end-to-end process. Through extensive experiments, we demonstrate that NodeRAG exhibits performance advantages over previous methods, including GraphRAG and LightRAG, not only in indexing time, query time, and storage efficiency but also in delivering superior question-answering performance on multi-hop benchmarks and open-ended head-to-head evaluations with minimal retrieval tokens. Our GitHub repository could be seen at https://github.com/Terry-Xu-666/NodeRAG.

Retrieval-Augmented Generation for software engineering often relies on vector similarity search, which captures topical similarity but can fail on multi-hop architectural reasoning such as controller to service to repository chains, interface-driven wiring, and inheritance. This paper benchmarks three retrieval pipelines on Java codebases (Shopizer, with additional runs on ThingsBoard and OpenMRS Core): (A) vector-only No-Graph RAG, (B) an LLM-generated knowledge graph RAG (LLM-KB), and (C) a deterministic AST-derived knowledge graph RAG (DKB) built with Tree-sitter and bidirectional traversal. Using 15 architecture and code-tracing queries per repository, we measure indexing time, query latency, corpus coverage, cost, and answer correctness. DKB builds its graph in seconds, while LLM-KB requires much longer graph generation. LLM-KB also shows indexing incompleteness: on Shopizer, 377 files are skipped or missed, reducing embedded chunk coverage and graph size compared to DKB. End-to-end cost is modest for DKB relative to the vector-only baseline but much higher for LLM-KB, especially as repository scale increases. Query latency is similar for No-Graph and DKB, while LLM-KB is slower and more variable. On the Shopizer question suite, DKB achieves the highest correctness, LLM-KB is close behind, and the vector-only baseline performs worst on upstream architectural queries and has the highest hallucination risk. Overall, deterministic AST-derived graphs provide more reliable coverage and multi-hop grounding than LLM-extracted graphs at substantially lower indexing cost.

Recent developments in retrieval-augmented generation (RAG) for selecting relevant tools from a tool knowledge base enable LLM agents to scale their complex tool calling capabilities to hundreds or thousands of external tools, APIs, or agents-as-tools. However, traditional RAG-based tool retrieval fails to capture structured dependencies between tools, limiting the retrieval accuracy of a retrieved tool's dependencies. For example, among a vector database of tools, a "get stock price" API requires a "stock ticker" parameter from a "get stock ticker" API, and both depend on OS-level internet connectivity tools. In this paper, we address this limitation by introducing Graph RAG-Tool Fusion, a novel plug-and-play approach that combines the strengths of vector-based retrieval with efficient graph traversal to capture all relevant tools (nodes) along with any nested dependencies (edges) within the predefined tool knowledge graph. We also present ToolLinkOS, a new tool selection benchmark of 573 fictional tools, spanning over 15 industries, each with an average of 6.3 tool dependencies. We demonstrate that Graph RAG-Tool Fusion achieves absolute improvements of 71.7% and 22.1% over na\"ive RAG on ToolLinkOS and ToolSandbox benchmarks, respectively (mAP@10). ToolLinkOS dataset is available at https://github.com/EliasLumer/Graph-RAG-Tool-Fusion-ToolLinkOS

Building effective knowledge graphs (KGs) for Retrieval-Augmented Generation (RAG) is pivotal for advancing question answering (QA) systems. However, its effectiveness is hindered by a fundamental disconnect: the knowledge graph (KG) construction process is decoupled from its downstream application, yielding suboptimal graph structures. To bridge this gap, we introduce AutoGraph-R1, the first framework to directly optimize KG construction for task performance using Reinforcement Learning (RL). AutoGraph-R1 trains an LLM constructor by framing graph generation as a policy learning problem, where the reward is derived from the graph's functional utility in a RAG pipeline. We design two novel, task-aware reward functions, one for graphs as knowledge carriers and another as knowledge indices. Across multiple QA benchmarks, AutoGraph-R1 consistently enables graph RAG methods to achieve significant performance gains over using task-agnostic baseline graphs. Our work shows it is possible to close the loop between construction and application, shifting the paradigm from building intrinsically ``good'' graphs to building demonstrably ``useful'' ones.

We introduce a novel graph-based Retrieval-Augmented Generation (RAG) framework specifically designed for the medical domain, called MedGraphRAG, aimed at enhancing Large Language Model (LLM) capabilities and generating evidence-based results, thereby improving safety and reliability when handling private medical data. Our comprehensive pipeline begins with a hybrid static-semantic approach to document chunking, significantly improving context capture over traditional methods. Extracted entities are used to create a three-tier hierarchical graph structure, linking entities to foundational medical knowledge sourced from medical papers and dictionaries. These entities are then interconnected to form meta-graphs, which are merged based on semantic similarities to develop a comprehensive global graph. This structure supports precise information retrieval and response generation. The retrieval process employs a U-retrieve method to balance global awareness and indexing efficiency of the LLM. Our approach is validated through a comprehensive ablation study comparing various methods for document chunking, graph construction, and information retrieval. The results not only demonstrate that our hierarchical graph construction method consistently outperforms state-of-the-art models on multiple medical Q\&A benchmarks, but also confirms that the responses generated include source documentation, significantly enhancing the reliability of medical LLMs in practical applications. Code will be at: https://github.com/MedicineToken/Medical-Graph-RAG/tree/main

Recent advances in Large Language Models (LLMs) have shown promise in function-level code generation, yet repository-level software engineering tasks remain challenging. Current solutions predominantly rely on proprietary LLM agents, which introduce unpredictability and limit accessibility, raising concerns about data privacy and model customization. This paper investigates whether open-source LLMs can effectively address repository-level tasks without requiring agent-based approaches. We demonstrate this is possible by enabling LLMs to comprehend functions and files within codebases through their semantic information and structural dependencies. To this end, we introduce Code Graph Models (CGMs), which integrate repository code graph structures into the LLM's attention mechanism and map node attributes to the LLM's input space using a specialized adapter. When combined with an agentless graph RAG framework, our approach achieves a 43.00% resolution rate on the SWE-bench Lite benchmark using the open-source Qwen2.5-72B model. This performance ranks first among open weight models, second among methods with open-source systems, and eighth overall, surpassing the previous best open-source model-based method by 12.33%.

Cognitive neuroscience research indicates that humans leverage cues to activate entity-centered memory traces (engrams) for complex, multi-hop recollection. Inspired by this mechanism, we introduce EcphoryRAG, an entity-centric knowledge graph RAG framework. During indexing, EcphoryRAG extracts and stores only core entities with corresponding metadata, a lightweight approach that reduces token consumption by up to 94\% compared to other structured RAG systems. For retrieval, the system first extracts cue entities from queries, then performs a scalable multi-hop associative search across the knowledge graph. Crucially, EcphoryRAG dynamically infers implicit relations between entities to populate context, enabling deep reasoning without exhaustive pre-enumeration of relationships. Extensive evaluations on the 2WikiMultiHop, HotpotQA, and MuSiQue benchmarks demonstrate that EcphoryRAG sets a new state-of-the-art, improving the average Exact Match (EM) score from 0.392 to 0.474 over strong KG-RAG methods like HippoRAG. These results validate the efficacy of the entity-cue-multi-hop retrieval paradigm for complex question answering.

Graph-RAG systems achieve strong multi-hop question answering by indexing documents into knowledge graphs, but strong retrieval does not guarantee strong answers. Evaluating KET-RAG, a leading Graph-RAG system, on three multi-hop QA benchmarks (HotpotQA, MuSiQue, 2WikiMultiHopQA), we find that 77% to 91% of questions have the gold answer in the retrieved context, yet accuracy is only 35% to 78%, and 73% to 84% of errors are reasoning failures. We propose two augmentations: (i) SPARQL chain-of-thought prompting, which decomposes questions into triple-pattern queries aligned with the entity-relationship context, and (ii) graph-walk compression, which compresses the context by ~60% via knowledge-graph traversal with no LLM calls. SPARQL CoT improves accuracy by +2 to +14 pp; graph-walk compression adds +6 pp on average when paired with structured prompting on smaller models. Surprisingly, we show that, with question-type routing, a fully augmented budget open-weight Llama-8B model matches or exceeds the unaugmented Llama-70B baseline on all three benchmarks at ~12x lower cost. A replication on LightRAG confirms that our augmentations transfer across Graph-RAG systems.

Graph-based Retrieval-Augmented Generation (Graph-RAG) enhances large language models (LLMs) by structuring retrieval over an external corpus. However, existing approaches typically assume a static corpus, requiring expensive full-graph reconstruction whenever new documents arrive, limiting their scalability in dynamic, evolving environments. To address these limitations, we introduce EraRAG, a novel multi-layered Graph-RAG framework that supports efficient and scalable dynamic updates. Our method leverages hyperplane-based Locality-Sensitive Hashing (LSH) to partition and organize the original corpus into hierarchical graph structures, enabling efficient and localized insertions of new data without disrupting the existing topology. The design eliminates the need for retraining or costly recomputation while preserving high retrieval accuracy and low latency. Experiments on large-scale benchmarks demonstrate that EraRag achieves up to an order of magnitude reduction in update time and token consumption compared to existing Graph-RAG systems, while providing superior accuracy performance. This work offers a practical path forward for RAG systems that must operate over continually growing corpora, bridging the gap between retrieval efficiency and adaptability. Our code and data are available at https://github.com/EverM0re/EraRAG-Official.