Healthy LLMs? Benchmarking LLM Knowledge of UK Government Public Health Information

As Large Language Models (LLMs) become widely accessible, a detailed understanding of their knowledge within specific domains becomes necessary for successful real world use. This is particularly critical in public health, where failure to retrieve relevant, accurate, and current information could significantly impact UK residents. However, currently little is known about LLM knowledge of UK Government public health information. To address this issue, this paper introduces a new benchmark, PubHealthBench, with over 8000 questions for evaluating LLMs' Multiple Choice Question Answering (MCQA) and free form responses to public health queries, created via an automated pipeline. We also release a new dataset of the extracted UK Government public health guidance documents used as source text for PubHealthBench. Assessing 24 LLMs on PubHealthBench we find the latest private LLMs (GPT-4.5, GPT-4.1 and o1) have a high degree of knowledge, achieving >90% in the MCQA setup, and outperform humans with cursory search engine use. However, in the free form setup we see lower performance with no model scoring >75%. Therefore, whilst there are promising signs that state of the art (SOTA) LLMs are an increasingly accurate source of public health information, additional safeguards or tools may still be needed when providing free form responses on public health topics.

Query-driven Document-level Scientific Evidence Extraction from Biomedical Studies

Extracting scientific evidence from biomedical studies for clinical research questions (e.g., Does stem cell transplantation improve quality of life in patients with medically refractory Crohn's disease compared to placebo?) is a crucial step in synthesising biomedical evidence. In this paper, we focus on the task of document-level scientific evidence extraction for clinical questions with conflicting evidence. To support this task, we create a dataset called CochraneForest, leveraging forest plots from Cochrane systematic reviews. It comprises 202 annotated forest plots, associated clinical research questions, full texts of studies, and study-specific conclusions. Building on CochraneForest, we propose URCA (Uniform Retrieval Clustered Augmentation), a retrieval-augmented generation framework designed to tackle the unique challenges of evidence extraction. Our experiments show that URCA outperforms the best existing methods by up to 10.3% in F1 score on this task. However, the results also underscore the complexity of CochraneForest, establishing it as a challenging testbed for advancing automated evidence synthesis systems.

DocSpiral: A Platform for Integrated Assistive Document Annotation through Human-in-the-Spiral

Acquiring structured data from domain-specific, image-based documents such as scanned reports is crucial for many downstream tasks but remains challenging due to document variability. Many of these documents exist as images rather than as machine-readable text, which requires human annotation to train automated extraction systems. We present DocSpiral, the first Human-in-the-Spiral assistive document annotation platform, designed to address the challenge of extracting structured information from domain-specific, image-based document collections. Our spiral design establishes an iterative cycle in which human annotations train models that progressively require less manual intervention. DocSpiral integrates document format normalization, comprehensive annotation interfaces, evaluation metrics dashboard, and API endpoints for the development of AI / ML models into a unified workflow. Experiments demonstrate that our framework reduces annotation time by at least 41\% while showing consistent performance gains across three iterations during model training. By making this annotation platform freely accessible, we aim to lower barriers to AI/ML models development in document processing, facilitating the adoption of large language models in image-based, document-intensive fields such as geoscience and healthcare. The system is freely available at: https://app.ai4wa.com. The demonstration video is available: https://app.ai4wa.com/docs/docspiral/demo.

Evaluation of LLMs on Long-tail Entity Linking in Historical Documents

Entity Linking (EL) plays a crucial role in Natural Language Processing (NLP) applications, enabling the disambiguation of entity mentions by linking them to their corresponding entries in a reference knowledge base (KB). Thanks to their deep contextual understanding capabilities, LLMs offer a new perspective to tackle EL, promising better results than traditional methods. Despite the impressive generalization capabilities of LLMs, linking less popular, long-tail entities remains challenging as these entities are often underrepresented in training data and knowledge bases. Furthermore, the long-tail EL task is an understudied problem, and limited studies address it with LLMs. In the present work, we assess the performance of two popular LLMs, GPT and LLama3, in a long-tail entity linking scenario. Using MHERCL v0.1, a manually annotated benchmark of sentences from domain-specific historical texts, we quantitatively compare the performance of LLMs in identifying and linking entities to their corresponding Wikidata entries against that of ReLiK, a state-of-the-art Entity Linking and Relation Extraction framework. Our preliminary experiments reveal that LLMs perform encouragingly well in long-tail EL, indicating that this technology can be a valuable adjunct in filling the gap between head and long-tail EL.

HalluMix: A Task-Agnostic, Multi-Domain Benchmark for Real-World Hallucination Detection

As large language models (LLMs) are increasingly deployed in high-stakes domains, detecting hallucinated content$\unicode{x2013}$text that is not grounded in supporting evidence$\unicode{x2013}$has become a critical challenge. Existing benchmarks for hallucination detection are often synthetically generated, narrowly focused on extractive question answering, and fail to capture the complexity of real-world scenarios involving multi-document contexts and full-sentence outputs. We introduce the HalluMix Benchmark, a diverse, task-agnostic dataset that includes examples from a range of domains and formats. Using this benchmark, we evaluate seven hallucination detection systems$\unicode{x2013}$both open and closed source$\unicode{x2013}$highlighting differences in performance across tasks, document lengths, and input representations. Our analysis highlights substantial performance disparities between short and long contexts, with critical implications for real-world Retrieval Augmented Generation (RAG) implementations. Quotient Detections achieves the best overall performance, with an accuracy of 0.82 and an F1 score of 0.84.

Natural Language Processing tools for Pharmaceutical Manufacturing Information Extraction from Patents

Abundant and diverse data on medicines manufacturing and other lifecycle components has been made easily accessible in the last decades. However, a significant proportion of this information is characterised by not being tabulated and usable for machine learning purposes. Thus, natural language processing tools have been used to build databases in domains such as biomedical and chemical to address this limitation. This has allowed the development of artificial intelligence applications, which have improved drug discovery and treatments. In the pharmaceutical manufacturing context, some initiatives and datasets for primary processing can be found, but the manufacturing of drug products is an area which is still lacking, to the best of our knowledge. This works aims to explore and adapt NLP tools used in other domains to extract information on both primary and secondary manufacturing, employing patents as the main source of data. Thus, two independent, but complementary, models were developed comprising a method to select fragments of text that contain manufacturing data, and a named entity recognition system that enables extracting information on operations, materials, and conditions of a process. For the first model, the identification of relevant sections was achieved using an unsupervised approach combining Latent Dirichlet Allocation and k-Means clustering. The performance of this model measured as a Cohen's kappa between model output and manual revision was higher than 90%. NER model consisted of a deep neural network, and an f1-score micro average of 84.2% was obtained which is comparable to other works. Some considerations for these tools to be used in data extraction are discussed throughout this document.

SubGrapher: Visual Fingerprinting of Chemical Structures

Automatic extraction of chemical structures from scientific literature plays a crucial role in accelerating research across fields ranging from drug discovery to materials science. Patent documents, in particular, contain molecular information in visual form, which is often inaccessible through traditional text-based searches. In this work, we introduce SubGrapher, a method for the visual fingerprinting of chemical structure images. Unlike conventional Optical Chemical Structure Recognition (OCSR) models that attempt to reconstruct full molecular graphs, SubGrapher focuses on extracting molecular fingerprints directly from chemical structure images. Using learning-based instance segmentation, SubGrapher identifies functional groups and carbon backbones, constructing a substructure-based fingerprint that enables chemical structure retrieval. Our approach is evaluated against state-of-the-art OCSR and fingerprinting methods, demonstrating superior retrieval performance and robustness across diverse molecular depictions. The dataset, models, and code will be made publicly available.

Transformer-Based Extraction of Statutory Definitions from the U.S. Code

Automatic extraction of definitions from legal texts is critical for enhancing the comprehension and clarity of complex legal corpora such as the United States Code (U.S.C.). We present an advanced NLP system leveraging transformer-based architectures to automatically extract defined terms, their definitions, and their scope from the U.S.C. We address the challenges of automatically identifying legal definitions, extracting defined terms, and determining their scope within this complex corpus of over 200,000 pages of federal statutory law. Building upon previous feature-based machine learning methods, our updated model employs domain-specific transformers (Legal-BERT) fine-tuned specifically for statutory texts, significantly improving extraction accuracy. Our work implements a multi-stage pipeline that combines document structure analysis with state-of-the-art language models to process legal text from the XML version of the U.S. Code. Each paragraph is first classified using a fine-tuned legal domain BERT model to determine if it contains a definition. Our system then aggregates related paragraphs into coherent definitional units and applies a combination of attention mechanisms and rule-based patterns to extract defined terms and their jurisdictional scope. The definition extraction system is evaluated on multiple titles of the U.S. Code containing thousands of definitions, demonstrating significant improvements over previous approaches. Our best model achieves 96.8% precision and 98.9% recall (98.2% F1-score), substantially outperforming traditional machine learning classifiers. This work contributes to improving accessibility and understanding of legal information while establishing a foundation for downstream legal reasoning tasks.

Automatic Text Summarization (ATS) for Research Documents in Sorani Kurdish

Extracting concise information from scientific documents aids learners, researchers, and practitioners. Automatic Text Summarization (ATS), a key Natural Language Processing (NLP) application, automates this process. While ATS methods exist for many languages, Kurdish remains underdeveloped due to limited resources. This study develops a dataset and language model based on 231 scientific papers in Sorani Kurdish, collected from four academic departments in two universities in the Kurdistan Region of Iraq (KRI), averaging 26 pages per document. Using Sentence Weighting and Term Frequency-Inverse Document Frequency (TF-IDF) algorithms, two experiments were conducted, differing in whether the conclusions were included. The average word count was 5,492.3 in the first experiment and 5,266.96 in the second. Results were evaluated manually and automatically using ROUGE-1, ROUGE-2, and ROUGE-L metrics, with the best accuracy reaching 19.58%. Six experts conducted manual evaluations using three criteria, with results varying by document. This research provides valuable resources for Kurdish NLP researchers to advance ATS and related fields.

Towards Leveraging Large Language Model Summaries for Topic Modeling in Source Code

Understanding source code is a topic of great interest in the software engineering community, since it can help programmers in various tasks such as software maintenance and reuse. Recent advances in large language models (LLMs) have demonstrated remarkable program comprehension capabilities, while transformer-based topic modeling techniques offer effective ways to extract semantic information from text. This paper proposes and explores a novel approach that combines these strengths to automatically identify meaningful topics in a corpus of Python programs. Our method consists in applying topic modeling on the descriptions obtained by asking an LLM to summarize the code. To assess the internal consistency of the extracted topics, we compare them against topics inferred from function names alone, and those derived from existing docstrings. Experimental results suggest that leveraging LLM-generated summaries provides interpretable and semantically rich representation of code structure. The promising results suggest that our approach can be fruitfully applied in various software engineering tasks such as automatic documentation and tagging, code search, software reorganization and knowledge discovery in large repositories.