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Apr 29

DocSage: An Information Structuring Agent for Multi-Doc Multi-Entity Question Answering

Multi-document Multi-entity Question Answering inherently demands models to track implicit logic between multiple entities across scattered documents. However, existing Large Language Models (LLMs) and Retrieval-Augmented Generation (RAG) frameworks suffer from critical limitations: standard RAG's vector similarity-based coarse-grained retrieval often omits critical facts, graph-based RAG fails to efficiently integrate fragmented complex relationship networks, and both lack schema awareness, leading to inadequate cross-document evidence chain construction and inaccurate entity relationship deduction. To address these challenges, we propose DocSage, an end-to-end agentic framework that integrates dynamic schema discovery, structured information extraction, and schema-aware relational reasoning with error guarantees. DocSage operates through three core modules: (1) A schema discovery module dynamically infers query-specific minimal joinable schemas to capture essential entities and relationships; (2) An extraction module transforms unstructured text into semantically coherent relational tables, enhanced by error-aware correction mechanisms to reduce extraction errors; (3) A reasoning module performs multi-hop relational reasoning over structured tables, leveraging schema awareness to efficiently align cross-document entities and aggregate evidence. This agentic design offers three key advantages: precise fact localization via SQL-powered indexing, natural support for cross-document entity joins through relational tables, and mitigated LLM attention diffusion via structured representation. Evaluations on two MDMEQA benchmarks demonstrate that DocSage significantly outperforms state-of-the-art long-context LLMs and RAG systems, achieving more than 27% accuracy improvements respectively.

  • 5 authors
·
Mar 11

Enhancing Document Information Analysis with Multi-Task Pre-training: A Robust Approach for Information Extraction in Visually-Rich Documents

This paper introduces a deep learning model tailored for document information analysis, emphasizing document classification, entity relation extraction, and document visual question answering. The proposed model leverages transformer-based models to encode all the information present in a document image, including textual, visual, and layout information. The model is pre-trained and subsequently fine-tuned for various document image analysis tasks. The proposed model incorporates three additional tasks during the pre-training phase, including reading order identification of different layout segments in a document image, layout segments categorization as per PubLayNet, and generation of the text sequence within a given layout segment (text block). The model also incorporates a collective pre-training scheme where losses of all the tasks under consideration, including pre-training and fine-tuning tasks with all datasets, are considered. Additional encoder and decoder blocks are added to the RoBERTa network to generate results for all tasks. The proposed model achieved impressive results across all tasks, with an accuracy of 95.87% on the RVL-CDIP dataset for document classification, F1 scores of 0.9306, 0.9804, 0.9794, and 0.8742 on the FUNSD, CORD, SROIE, and Kleister-NDA datasets respectively for entity relation extraction, and an ANLS score of 0.8468 on the DocVQA dataset for visual question answering. The results highlight the effectiveness of the proposed model in understanding and interpreting complex document layouts and content, making it a promising tool for document analysis tasks.

  • 2 authors
·
Oct 25, 2023

Large language models in healthcare and medical domain: A review

The deployment of large language models (LLMs) within the healthcare sector has sparked both enthusiasm and apprehension. These models exhibit the remarkable capability to provide proficient responses to free-text queries, demonstrating a nuanced understanding of professional medical knowledge. This comprehensive survey delves into the functionalities of existing LLMs designed for healthcare applications, elucidating the trajectory of their development, starting from traditional Pretrained Language Models (PLMs) to the present state of LLMs in healthcare sector. First, we explore the potential of LLMs to amplify the efficiency and effectiveness of diverse healthcare applications, particularly focusing on clinical language understanding tasks. These tasks encompass a wide spectrum, ranging from named entity recognition and relation extraction to natural language inference, multi-modal medical applications, document classification, and question-answering. Additionally, we conduct an extensive comparison of the most recent state-of-the-art LLMs in the healthcare domain, while also assessing the utilization of various open-source LLMs and highlighting their significance in healthcare applications. Furthermore, we present the essential performance metrics employed to evaluate LLMs in the biomedical domain, shedding light on their effectiveness and limitations. Finally, we summarize the prominent challenges and constraints faced by large language models in the healthcare sector, offering a holistic perspective on their potential benefits and shortcomings. This review provides a comprehensive exploration of the current landscape of LLMs in healthcare, addressing their role in transforming medical applications and the areas that warrant further research and development.

  • 2 authors
·
Dec 12, 2023

Large Language Models Struggle to Learn Long-Tail Knowledge

The internet contains a wealth of knowledge -- from the birthdays of historical figures to tutorials on how to code -- all of which may be learned by language models. However, there is a huge variability in the number of times a given piece of information appears on the web. In this paper, we study the relationship between the knowledge memorized by large language models and the information in their pre-training datasets. In particular, we show that a language model's ability to answer a fact-based question relates to how many documents associated with that question were seen during pre-training. We identify these relevant documents by entity linking pre-training datasets and counting documents that contain the same entities as a given question-answer pair. Our results demonstrate strong correlational and causal relationships between accuracy and relevant document count for numerous question answering datasets (e.g., TriviaQA), pre-training corpora (e.g., ROOTS), and model sizes (e.g., 176B parameters). Moreover, we find that while larger models are better at learning long-tail knowledge, we estimate that today's models must be scaled by many orders of magnitude to reach competitive QA performance on questions with little support in the pre-training data. Finally, we show that retrieval-augmentation can reduce the dependence on relevant document count, presenting a promising approach for capturing the long-tail.

  • 5 authors
·
Nov 15, 2022

Retrieval Helps or Hurts? A Deeper Dive into the Efficacy of Retrieval Augmentation to Language Models

While large language models (LMs) demonstrate remarkable performance, they encounter challenges in providing accurate responses when queried for information beyond their pre-trained memorization. Although augmenting them with relevant external information can mitigate these issues, failure to consider the necessity of retrieval may adversely affect overall performance. Previous research has primarily focused on examining how entities influence retrieval models and knowledge recall in LMs, leaving other aspects relatively unexplored. In this work, our goal is to offer a more detailed, fact-centric analysis by exploring the effects of combinations of entities and relations. To facilitate this, we construct a new question answering (QA) dataset called WiTQA (Wikipedia Triple Question Answers). This dataset includes questions about entities and relations of various popularity levels, each accompanied by a supporting passage. Our extensive experiments with diverse LMs and retrievers reveal when retrieval does not consistently enhance LMs from the viewpoints of fact-centric popularity.Confirming earlier findings, we observe that larger LMs excel in recalling popular facts. However, they notably encounter difficulty with infrequent entity-relation pairs compared to retrievers. Interestingly, they can effectively retain popular relations of less common entities. We demonstrate the efficacy of our finer-grained metric and insights through an adaptive retrieval system that selectively employs retrieval and recall based on the frequencies of entities and relations in the question.

  • 4 authors
·
Feb 20, 2024

Peek Across: Improving Multi-Document Modeling via Cross-Document Question-Answering

The integration of multi-document pre-training objectives into language models has resulted in remarkable improvements in multi-document downstream tasks. In this work, we propose extending this idea by pre-training a generic multi-document model from a novel cross-document question answering pre-training objective. To that end, given a set (or cluster) of topically-related documents, we systematically generate semantically-oriented questions from a salient sentence in one document and challenge the model, during pre-training, to answer these questions while "peeking" into other topically-related documents. In a similar manner, the model is also challenged to recover the sentence from which the question was generated, again while leveraging cross-document information. This novel multi-document QA formulation directs the model to better recover cross-text informational relations, and introduces a natural augmentation that artificially increases the pre-training data. Further, unlike prior multi-document models that focus on either classification or summarization tasks, our pre-training objective formulation enables the model to perform tasks that involve both short text generation (e.g., QA) and long text generation (e.g., summarization). Following this scheme, we pre-train our model -- termed QAmden -- and evaluate its performance across several multi-document tasks, including multi-document QA, summarization, and query-focused summarization, yielding improvements of up to 7%, and significantly outperforms zero-shot GPT-3.5 and GPT-4.

  • 5 authors
·
May 24, 2023

NERetrieve: Dataset for Next Generation Named Entity Recognition and Retrieval

Recognizing entities in texts is a central need in many information-seeking scenarios, and indeed, Named Entity Recognition (NER) is arguably one of the most successful examples of a widely adopted NLP task and corresponding NLP technology. Recent advances in large language models (LLMs) appear to provide effective solutions (also) for NER tasks that were traditionally handled with dedicated models, often matching or surpassing the abilities of the dedicated models. Should NER be considered a solved problem? We argue to the contrary: the capabilities provided by LLMs are not the end of NER research, but rather an exciting beginning. They allow taking NER to the next level, tackling increasingly more useful, and increasingly more challenging, variants. We present three variants of the NER task, together with a dataset to support them. The first is a move towards more fine-grained -- and intersectional -- entity types. The second is a move towards zero-shot recognition and extraction of these fine-grained types based on entity-type labels. The third, and most challenging, is the move from the recognition setup to a novel retrieval setup, where the query is a zero-shot entity type, and the expected result is all the sentences from a large, pre-indexed corpus that contain entities of these types, and their corresponding spans. We show that all of these are far from being solved. We provide a large, silver-annotated corpus of 4 million paragraphs covering 500 entity types, to facilitate research towards all of these three goals.

  • 4 authors
·
Oct 22, 2023 6

Narrowing the Knowledge Evaluation Gap: Open-Domain Question Answering with Multi-Granularity Answers

Factual questions typically can be answered correctly at different levels of granularity. For example, both ``August 4, 1961'' and ``1961'' are correct answers to the question ``When was Barack Obama born?''. Standard question answering (QA) evaluation protocols, however, do not explicitly take this into account and compare a predicted answer against answers of a single granularity level. In this work, we propose GRANOLA QA, a novel evaluation setting where a predicted answer is evaluated in terms of accuracy and informativeness against a set of multi-granularity answers. We present a simple methodology for enriching existing datasets with multi-granularity answers, and create GRANOLA-EQ, a multi-granularity version of the EntityQuestions dataset. We evaluate a range of decoding methods on GRANOLA-EQ, including a new algorithm, called Decoding with Response Aggregation (DRAG), that is geared towards aligning the response granularity with the model's uncertainty. Our experiments show that large language models with standard decoding tend to generate specific answers, which are often incorrect. In contrast, when evaluated on multi-granularity answers, DRAG yields a nearly 20 point increase in accuracy on average, which further increases for rare entities. Overall, this reveals that standard evaluation and decoding schemes may significantly underestimate the knowledge encapsulated in LMs.

  • 3 authors
·
Jan 9, 2024

Analyzing the Efficacy of an LLM-Only Approach for Image-based Document Question Answering

Recent document question answering models consist of two key components: the vision encoder, which captures layout and visual elements in images, and a Large Language Model (LLM) that helps contextualize questions to the image and supplements them with external world knowledge to generate accurate answers. However, the relative contributions of the vision encoder and the language model in these tasks remain unclear. This is especially interesting given the effectiveness of instruction-tuned LLMs, which exhibit remarkable adaptability to new tasks. To this end, we explore the following aspects in this work: (1) The efficacy of an LLM-only approach on document question answering tasks (2) strategies for serializing textual information within document images and feeding it directly to an instruction-tuned LLM, thus bypassing the need for an explicit vision encoder (3) thorough quantitative analysis on the feasibility of such an approach. Our comprehensive analysis encompasses six diverse benchmark datasets, utilizing LLMs of varying scales. Our findings reveal that a strategy exclusively reliant on the LLM yields results that are on par with or closely approach state-of-the-art performance across a range of datasets. We posit that this evaluation framework will serve as a guiding resource for selecting appropriate datasets for future research endeavors that emphasize the fundamental importance of layout and image content information.

  • 4 authors
·
Sep 25, 2023

M3DocRAG: Multi-modal Retrieval is What You Need for Multi-page Multi-document Understanding

Document visual question answering (DocVQA) pipelines that answer questions from documents have broad applications. Existing methods focus on handling single-page documents with multi-modal language models (MLMs), or rely on text-based retrieval-augmented generation (RAG) that uses text extraction tools such as optical character recognition (OCR). However, there are difficulties in applying these methods in real-world scenarios: (a) questions often require information across different pages or documents, where MLMs cannot handle many long documents; (b) documents often have important information in visual elements such as figures, but text extraction tools ignore them. We introduce M3DocRAG, a novel multi-modal RAG framework that flexibly accommodates various document contexts (closed-domain and open-domain), question hops (single-hop and multi-hop), and evidence modalities (text, chart, figure, etc.). M3DocRAG finds relevant documents and answers questions using a multi-modal retriever and an MLM, so that it can efficiently handle single or many documents while preserving visual information. Since previous DocVQA datasets ask questions in the context of a specific document, we also present M3DocVQA, a new benchmark for evaluating open-domain DocVQA over 3,000+ PDF documents with 40,000+ pages. In three benchmarks (M3DocVQA/MMLongBench-Doc/MP-DocVQA), empirical results show that M3DocRAG with ColPali and Qwen2-VL 7B achieves superior performance than many strong baselines, including state-of-the-art performance in MP-DocVQA. We provide comprehensive analyses of different indexing, MLMs, and retrieval models. Lastly, we qualitatively show that M3DocRAG can successfully handle various scenarios, such as when relevant information exists across multiple pages and when answer evidence only exists in images.

  • 5 authors
·
Nov 7, 2024 4

DocHop-QA: Towards Multi-Hop Reasoning over Multimodal Document Collections

Despite recent advances in large language models (LLMs), most QA benchmarks are still confined to single-paragraph or single-document settings, failing to capture the complexity of real-world information-seeking tasks. Practical QA often requires multi-hop reasoning over information distributed across multiple documents, modalities, and structural formats. Although prior datasets made progress in this area, they rely heavily on Wikipedia-based content and unimodal plain text, with shallow reasoning paths that typically produce brief phrase-level or single-sentence answers, thus limiting their realism and generalizability. We propose DocHop-QA, a large-scale benchmark comprising 11,379 QA instances for multimodal, multi-document, multi-hop question answering. Constructed from publicly available scientific documents sourced from PubMed, DocHop-QA is domain-agnostic and incorporates diverse information formats, including textual passages, tables, and structural layout cues. Unlike existing datasets, DocHop-QA does not rely on explicitly hyperlinked documents; instead, it supports open-ended reasoning through semantic similarity and layout-aware evidence synthesis. To scale realistic QA construction, we designed an LLM-driven pipeline grounded in 11 high-frequency scientific question concepts. We evaluated DocHop-QA through four tasks spanning structured index prediction, generative answering, and multimodal integration, reflecting both discriminative and generative paradigms. These tasks demonstrate DocHop-QA's capacity to support complex, multimodal reasoning across multiple documents.

  • 6 authors
·
Aug 20, 2025

Multi-hop Question Answering via Reasoning Chains

Multi-hop question answering requires models to gather information from different parts of a text to answer a question. Most current approaches learn to address this task in an end-to-end way with neural networks, without maintaining an explicit representation of the reasoning process. We propose a method to extract a discrete reasoning chain over the text, which consists of a series of sentences leading to the answer. We then feed the extracted chains to a BERT-based QA model to do final answer prediction. Critically, we do not rely on gold annotated chains or "supporting facts:" at training time, we derive pseudogold reasoning chains using heuristics based on named entity recognition and coreference resolution. Nor do we rely on these annotations at test time, as our model learns to extract chains from raw text alone. We test our approach on two recently proposed large multi-hop question answering datasets: WikiHop and HotpotQA, and achieve state-of-art performance on WikiHop and strong performance on HotpotQA. Our analysis shows the properties of chains that are crucial for high performance: in particular, modeling extraction sequentially is important, as is dealing with each candidate sentence in a context-aware way. Furthermore, human evaluation shows that our extracted chains allow humans to give answers with high confidence, indicating that these are a strong intermediate abstraction for this task.

  • 3 authors
·
Oct 7, 2019

Autoregressive Entity Retrieval

Entities are at the center of how we represent and aggregate knowledge. For instance, Encyclopedias such as Wikipedia are structured by entities (e.g., one per Wikipedia article). The ability to retrieve such entities given a query is fundamental for knowledge-intensive tasks such as entity linking and open-domain question answering. Current approaches can be understood as classifiers among atomic labels, one for each entity. Their weight vectors are dense entity representations produced by encoding entity meta information such as their descriptions. This approach has several shortcomings: (i) context and entity affinity is mainly captured through a vector dot product, potentially missing fine-grained interactions; (ii) a large memory footprint is needed to store dense representations when considering large entity sets; (iii) an appropriately hard set of negative data has to be subsampled at training time. In this work, we propose GENRE, the first system that retrieves entities by generating their unique names, left to right, token-by-token in an autoregressive fashion. This mitigates the aforementioned technical issues since: (i) the autoregressive formulation directly captures relations between context and entity name, effectively cross encoding both; (ii) the memory footprint is greatly reduced because the parameters of our encoder-decoder architecture scale with vocabulary size, not entity count; (iii) the softmax loss is computed without subsampling negative data. We experiment with more than 20 datasets on entity disambiguation, end-to-end entity linking and document retrieval tasks, achieving new state-of-the-art or very competitive results while using a tiny fraction of the memory footprint of competing systems. Finally, we demonstrate that new entities can be added by simply specifying their names. Code and pre-trained models at https://github.com/facebookresearch/GENRE.

  • 4 authors
·
Oct 2, 2020

MDocAgent: A Multi-Modal Multi-Agent Framework for Document Understanding

Document Question Answering (DocQA) is a very common task. Existing methods using Large Language Models (LLMs) or Large Vision Language Models (LVLMs) and Retrieval Augmented Generation (RAG) often prioritize information from a single modal, failing to effectively integrate textual and visual cues. These approaches struggle with complex multi-modal reasoning, limiting their performance on real-world documents. We present MDocAgent (A Multi-Modal Multi-Agent Framework for Document Understanding), a novel RAG and multi-agent framework that leverages both text and image. Our system employs five specialized agents: a general agent, a critical agent, a text agent, an image agent and a summarizing agent. These agents engage in multi-modal context retrieval, combining their individual insights to achieve a more comprehensive understanding of the document's content. This collaborative approach enables the system to synthesize information from both textual and visual components, leading to improved accuracy in question answering. Preliminary experiments on five benchmarks like MMLongBench, LongDocURL demonstrate the effectiveness of our MDocAgent, achieve an average improvement of 12.1% compared to current state-of-the-art method. This work contributes to the development of more robust and comprehensive DocQA systems capable of handling the complexities of real-world documents containing rich textual and visual information. Our data and code are available at https://github.com/aiming-lab/MDocAgent.

  • 7 authors
·
Mar 18, 2025 2

PDF-WuKong: A Large Multimodal Model for Efficient Long PDF Reading with End-to-End Sparse Sampling

Document understanding is a challenging task to process and comprehend large amounts of textual and visual information. Recent advances in Large Language Models (LLMs) have significantly improved the performance of this task. However, existing methods typically focus on either plain text or a limited number of document images, struggling to handle long PDF documents with interleaved text and images, especially in academic papers. In this paper, we introduce PDF-WuKong, a multimodal large language model (MLLM) which is designed to enhance multimodal question-answering (QA) for long PDF documents. PDF-WuKong incorporates a sparse sampler that operates on both text and image representations, significantly improving the efficiency and capability of the MLLM. The sparse sampler is integrated with the MLLM's image encoder and selects the paragraphs or diagrams most pertinent to user queries for processing by the language model. To effectively train and evaluate our model, we construct PaperPDF, a dataset consisting of a broad collection of academic papers sourced from arXiv, multiple strategies are proposed to generate automatically 1M QA pairs along with their corresponding evidence sources. Experimental results demonstrate the superiority and high efficiency of our approach over other models on the task of long multimodal PDF understanding, surpassing proprietary products by an average of 8.6% on F1. Our code and dataset will be released at https://github.com/yh-hust/PDF-Wukong.

  • 9 authors
·
Oct 8, 2024

AMELI: Enhancing Multimodal Entity Linking with Fine-Grained Attributes

We propose attribute-aware multimodal entity linking, where the input consists of a mention described with a text paragraph and images, and the goal is to predict the corresponding target entity from a multimodal knowledge base (KB) where each entity is also accompanied by a text description, visual images, and a collection of attributes that present the meta-information of the entity in a structured format. To facilitate this research endeavor, we construct AMELI, encompassing a new multimodal entity linking benchmark dataset that contains 16,735 mentions described in text and associated with 30,472 images, and a multimodal knowledge base that covers 34,690 entities along with 177,873 entity images and 798,216 attributes. To establish baseline performance on AMELI, we experiment with several state-of-the-art architectures for multimodal entity linking and further propose a new approach that incorporates attributes of entities into disambiguation. Experimental results and extensive qualitative analysis demonstrate that extracting and understanding the attributes of mentions from their text descriptions and visual images play a vital role in multimodal entity linking. To the best of our knowledge, we are the first to integrate attributes in the multimodal entity linking task. The programs, model checkpoints, and the dataset are publicly available at https://github.com/VT-NLP/Ameli.

  • 8 authors
·
May 24, 2023

Cooperative Retrieval-Augmented Generation for Question Answering: Mutual Information Exchange and Ranking by Contrasting Layers

Since large language models (LLMs) have a tendency to generate factually inaccurate output, retrieval-augmented generation (RAG) has gained significant attention as a key means to mitigate this downside of harnessing only LLMs. However, existing RAG methods for simple and multi-hop question answering (QA) are still prone to incorrect retrievals and hallucinations. To address these limitations, we propose CoopRAG, a novel RAG framework for the question answering task in which a retriever and an LLM work cooperatively with each other by exchanging informative knowledge, and the earlier and later layers of the retriever model work cooperatively with each other to accurately rank the retrieved documents relevant to a given query. In this framework, we (i) unroll a question into sub-questions and a reasoning chain in which uncertain positions are masked, (ii) retrieve the documents relevant to the question augmented with the sub-questions and the reasoning chain, (iii) rerank the documents by contrasting layers of the retriever, and (iv) reconstruct the reasoning chain by filling the masked positions via the LLM. Our experiments demonstrate that CoopRAG consistently outperforms state-of-the-art QA methods on three multi-hop QA datasets as well as a simple QA dataset in terms of both the retrieval and QA performances. Our code is available.

  • 3 authors
·
Dec 11, 2025

Resources for Brewing BEIR: Reproducible Reference Models and an Official Leaderboard

BEIR is a benchmark dataset for zero-shot evaluation of information retrieval models across 18 different domain/task combinations. In recent years, we have witnessed the growing popularity of a representation learning approach to building retrieval models, typically using pretrained transformers in a supervised setting. This naturally begs the question: How effective are these models when presented with queries and documents that differ from the training data? Examples include searching in different domains (e.g., medical or legal text) and with different types of queries (e.g., keywords vs. well-formed questions). While BEIR was designed to answer these questions, our work addresses two shortcomings that prevent the benchmark from achieving its full potential: First, the sophistication of modern neural methods and the complexity of current software infrastructure create barriers to entry for newcomers. To this end, we provide reproducible reference implementations that cover the two main classes of approaches: learned dense and sparse models. Second, there does not exist a single authoritative nexus for reporting the effectiveness of different models on BEIR, which has led to difficulty in comparing different methods. To remedy this, we present an official self-service BEIR leaderboard that provides fair and consistent comparisons of retrieval models. By addressing both shortcomings, our work facilitates future explorations in a range of interesting research questions that BEIR enables.

  • 6 authors
·
Jun 12, 2023