Clinical named entity recognition in the Portuguese language: a benchmark of modern BERT models and LLMs

Clinical notes contain valuable unstructured information. Named entity recognition (NER) enables the automatic extraction of medical concepts; however, benchmarks for Portuguese remain scarce. In this study, we aimed to evaluate BERT-based models and large language models (LLMs) for clinical NER in Portuguese and to test strategies for addressing multilabel imbalance. We compared BioBERTpt, BERTimbau, ModernBERT, and mmBERT with LLMs such as GPT-5 and Gemini-2.5, using the public SemClinBr corpus and a private breast cancer dataset. Models were trained under identical conditions and evaluated using precision, recall, and F1-score. Iterative stratification, weighted loss, and oversampling were explored to mitigate class imbalance. The mmBERT-base model achieved the best performance (micro F1 = 0.76), outperforming all other models. Iterative stratification improved class balance and overall performance. Multilingual BERT models, particularly mmBERT, perform strongly for Portuguese clinical NER and can run locally with limited computational resources. Balanced data-splitting strategies further enhance performance.

IndoBERT-Relevancy: A Context-Conditioned Relevancy Classifier for Indonesian Text

Determining whether a piece of text is relevant to a given topic is a fundamental task in natural language processing, yet it remains largely unexplored for Bahasa Indonesia. Unlike sentiment analysis or named entity recognition, relevancy classification requires the model to reason about the relationship between two inputs simultaneously: a topical context and a candidate text. We introduce IndoBERT-Relevancy, a context-conditioned relevancy classifier built on IndoBERT Large (335M parameters) and trained on a novel dataset of 31,360 labeled pairs spanning 188 topics. Through an iterative, failure-driven data construction process, we demonstrate that no single data source is sufficient for robust relevancy classification, and that targeted synthetic data can effectively address specific model weaknesses. Our final model achieves an F1 score of 0.948 and an accuracy of 96.5%, handling both formal and informal Indonesian text. The model is publicly available at HuggingFace.

Triangulating Temporal Dynamics in Multilingual Swiss Online News

Analyzing news coverage in multilingual societies can offer valuable insights into the dynamics of public discourse and the development of collective narratives, yet comprehensive studies that account for linguistic and cultural diversity within national media ecosystems remain limited, particularly in complex contexts such as Switzerland. This paper studies temporal trends in Swiss digital media across the country's three main linguistic regions, French, German, and Italian, using a triangulated methodology that combines quantitative analyses with qualitative insights. We collected and processed over 1.7 million news articles, applying lexical metrics, named entity recognition and Wikidata-based linking, targeted sentiment analysis, and consensus-based change-point detection. To enable principled cross-language comparisons and to connect to theories of domestication and cultural proximity, we derive domestication profiles together with a proximity salience ratio. Our analysis spans thematic, recurrent, and singular events. By integrating quantitative data with qualitative interpretation, we provide new insights into the dynamics of Swiss digital media and demonstrate the usefulness of triangulation in media studies. The findings reveal distinct temporal patterns and highlight how linguistic and cultural contexts influence reporting. Our approach offers a framework applicable to other multilingual or culturally diverse media environments, contributing to a deeper understanding of how news is shaped by linguistic and cultural factors.

LGSE: Lexically Grounded Subword Embedding Initialization for Low-Resource Language Adaptation

Adapting pretrained language models to low-resource, morphologically rich languages remains a significant challenge. Existing vocabulary expansion methods typically rely on arbitrarily segmented subword units, resulting in fragmented lexical representations and loss of critical morphological information. To address this limitation, we propose the Lexically Grounded Subword Embedding Initialization (LGSE) framework, which introduces morphologically informed segmentation for initializing embeddings of novel tokens. Instead of using random vectors or arbitrary subwords, LGSE decomposes words into their constituent morphemes and constructs semantically coherent embeddings by averaging pretrained subword or FastText-based morpheme representations. When a token cannot be segmented into meaningful morphemes, its embedding is constructed using character n-gram representations to capture structural information. During Language-Adaptive Pretraining, we apply a regularization term that penalizes large deviations of newly introduced embeddings from their initialized values, preserving alignment with the original pretrained embedding space while enabling adaptation to the target language. To isolate the effect of initialization, we retain the original pre-trained model vocabulary and tokenizer and update only the new embeddings during adaptation. We evaluate LGSE on three NLP tasks: Question Answering, Named Entity Recognition, and Text Classification, in two morphologically rich, low-resource languages: Amharic and Tigrinya, where morphological segmentation resources are available. Experimental results show that LGSE consistently outperforms baseline methods across all tasks, demonstrating the effectiveness of morphologically grounded embedding initialization for improving representation quality in underrepresented languages. Project resources are available in the GitHub link.

A Proposal-Free Query-Guided Network for Grounded Multimodal Named Entity Recognition

Grounded Multimodal Named Entity Recognition (GMNER) identifies named entities, including their spans and types, in natural language text and grounds them to the corresponding regions in associated images. Most existing approaches split this task into two steps: they first detect objects using a pre-trained general-purpose detector and then match named entities to the detected objects. However, these methods face a major limitation. Because pre-trained general-purpose object detectors operate independently of textual entities, they tend to detect common objects and frequently overlook specific fine-grained regions required by named entities. This misalignment between object detectors and entities introduces imprecision and can impair overall system performance. In this paper, we propose a proposal-free Query-Guided Network (QGN) that unifies multimodal reasoning and decoding through text guidance and cross- modal interaction. QGN enables accurate grounding and robust performance in open-domain scenarios. Extensive experiments demonstrate that QGN achieves top performance among compared GMNER models on widely used benchmarks.

Anonymous-by-Construction: An LLM-Driven Framework for Privacy-Preserving Text

Responsible use of AI demands that we protect sensitive information without undermining the usefulness of data, an imperative that has become acute in the age of large language models. We address this challenge with an on-premise, LLM-driven substitution pipeline that anonymizes text by replacing personally identifiable information (PII) with realistic, type-consistent surrogates. Executed entirely within organizational boundaries using local LLMs, the approach prevents data egress while preserving fluency and task-relevant semantics. We conduct a systematic, multi-metric, cross-technique evaluation on the Action-Based Conversation Dataset, benchmarking against industry standards (Microsoft Presidio and Google DLP) and a state-of-the-art approach (ZSTS, in redaction-only and redaction-plus-substitution variants). Our protocol jointly measures privacy, semantic utility, and trainability under privacy via a lifecycle-ready criterion obtained by fine-tuning a compact encoder (BERT+LoRA) on sanitized text. In addition, we assess agentic Q&A performance by inserting an on-premise anonymization layer before the answering LLM and evaluating the quality of its responses. This intermediate, type-preserving substitution stage ensures that no sensitive content is exposed to third-party APIs, enabling responsible deployment of Q\&A agents without compromising confidentiality. Our method attains state-of-the-art privacy, minimal topical drift, strong factual utility, and low trainability loss, outperforming rule-based approaches and named-entity recognition (NER) baselines and ZSTS variants on the combined privacy--utility--trainability frontier. These results show that local LLM substitution yields anonymized corpora that are both responsible to use and operationally valuable: safe for agentic pipelines and suitable for downstream fine-tuning with limited degradation.

The GELATO Dataset for Legislative NER

This paper introduces GELATO (Government, Executive, Legislative, and Treaty Ontology), a dataset of U.S. House and Senate bills from the 118th Congress annotated using a novel two-level named entity recognition ontology designed for U.S. legislative texts. We fine-tune transformer-based models (BERT, RoBERTa) of different architectures and sizes on this dataset for first-level prediction. We then use LLMs with optimized prompts to complete the second level prediction. The strong performance of RoBERTa and relatively weak performance of BERT models, as well as the application of LLMs as second-level predictors, support future research in legislative NER or downstream tasks using these model combinations as extraction tools.

RECOVER: Robust Entity Correction via agentic Orchestration of hypothesis Variants for Evidence-based Recovery

Entity recognition in Automatic Speech Recognition (ASR) is challenging for rare and domain-specific terms. In domains such as finance, medicine, and air traffic control, these errors are costly. If the entities are entirely absent from the ASR output, post-ASR correction becomes difficult. To address this, we introduce RECOVER, an agentic correction framework that serves as a tool-using agent. It leverages multiple hypotheses as evidence from ASR, retrieves relevant entities, and applies Large Language Model (LLM) correction under constraints. The hypotheses are used using different strategies, namely, 1-Best, Entity-Aware Select, Recognizer Output Voting Error Reduction (ROVER) Ensemble, and LLM-Select. Evaluated across five diverse datasets, it achieves 8-46% relative reductions in entity-phrase word error rate (E-WER) and increases recall by up to 22 percentage points. The LLM-Select achieves the best overall performance in entity correction while maintaining overall WER.

Supporting Workflow Reproducibility by Linking Bioinformatics Tools across Papers and Executable Code

Motivation: The rapid growth of biological data has intensified the need for transparent, reproducible, and well-documented computational workflows. The ability to clearly connect the steps of a workflow in the code with their description in a paper would improve workflow understanding, support reproducibility, and facilitate reuse. This task requires the linking of Bioinformatics tools in workflow code with their mentions in a published workflow description. Results: We present CoPaLink, an automated approach that integrates three components: Named Entity Recognition (NER) for identifying tool mentions in scientific text, NER for tool mentions in workflow code, and entity linking grounded on Bioinformatics knowledge bases. We propose approaches for all three steps achieving a high individual F1-measure (84 - 89) and a joint accuracy of 66 when evaluated on Nextflow workflows using Bioconda and Bioweb Knowledge bases. CoPaLink leverages corpora of scientific articles and workflow executable code with curated tool annotations to bridge the gap between narrative descriptions and workflow implementations. Availability: The code is available at https://gitlab.liris.cnrs.fr/sharefair/copalink-experiments and https://gitlab.liris.cnrs.fr/sharefair/copalink. The corpora are also available at https://doi.org/10.5281/zenodo.18526700, https://doi.org/10.5281/zenodo.18526760 and https://doi.org/10.5281/zenodo.18543814.

SinhaLegal: A Benchmark Corpus for Information Extraction and Analysis in Sinhala Legislative Texts

SinhaLegal introduces a Sinhala legislative text corpus containing approximately 2 million words across 1,206 legal documents. The dataset includes two types of legal documents: 1,065 Acts dated from 1981 to 2014 and 141 Bills from 2010 to 2014, which were systematically collected from official sources. The texts were extracted using OCR with Google Document AI, followed by extensive post-processing and manual cleaning to ensure high-quality, machine-readable content, along with dedicated metadata files for each document. A comprehensive evaluation was conducted, including corpus statistics, lexical diversity, word frequency analysis, named entity recognition, and topic modelling, demonstrating the structured and domain-specific nature of the corpus. Additionally, perplexity analysis using both large and small language models was performed to assess how effectively language models respond to domain-specific texts. The SinhaLegal corpus represents a vital resource designed to support NLP tasks such as summarisation, information extraction, and analysis, thereby bridging a critical gap in Sinhala legal research.