2025
Autores
Leite, M; Silva, RR; Guimarães, N; Stork, L; Jorge, A;
Publicação
EPIA (1)
Abstract
Providing healthcare professionals with quick access to structured standardized information enables comprehensive analysis and improves clinical decision-making. However, an important part of the records in health institutions is in the form of free text. This paper proposes a pipeline that automatically extracts medical information from Electronic Medical Records (EMRs), based on large language models (LLMs) and a domain ontology defined and validated in collaboration with a medical expert. The output is a knowledge graph of clinical narratives that can be used to search through repositories of EMRs or discover new facts. To promote the standardization of the extracted medical terms, we link them to existing international coding systems using biomedical repositories (UMLS - Unified Medical Language System and BioPortal - Biomedical Ontology Repository). We showcase our approach on a set of Portuguese clinical texts of cases of Acute Myeloid Leukemia (AML) guided by one medical expert. We evaluate the quality of the extraction and of the knowledge graph.
2025
Autores
Henriques, L; Guimarães, N; Jorge, A;
Publicação
EPIA (1)
Abstract
The ever-increasing volume of data produced in Healthcare demands solutions capable of automatically extracting the relevant elements of their narratives. However, given privacy regulations, bureaucratic procedures, and annotation efforts, the development of said solutions via Natural Language Processing (NLP) systems becomes hindered due to training data scarcity. Such scarcity increases when we consider languages and language varieties with lower resource availability, such as European and Brazilian Portuguese. To address this problem, we propose a Large Language Model (LLM)-based SDG (Synthetic Data Generation) framework to generate and annotate synthetic clinical texts for medical Named-Entity Recognition (NER). The SDG framework consists of a system/user prompt augmented with real examples, powered by GPT-4o. Our results show that, by feeding the framework few real clinical annotated texts, we can generate synthetic data capable of increasing the performance of NER models with respect to their non-augmented counterparts. In addition, the reduction of the BLEU scores in the generated texts indicates a decrease in the risk of privacy disclosure while ensuring greater lexical diversity. These results highlight the potential of synthetic data as a solution to overcome human annotation bottlenecks and privacy concerns, laying the groundwork for future research in clinical NLP across tasks, domains, and low-resource languages.
2025
Autores
Campos, R; Jorge, AM; Jatowt, A; Bhatia, S; Litvak, M; Cordeiro, JP; Rocha, C; Sousa, HO; Cunha, LF; Mansouri, B;
Publicação
SIGIR Forum
Abstract
2025
Autores
Sousa, HO; Campos, R; Jorge, A;
Publicação
CIKM
Abstract
In this paper we demo the Temporal Game, a novel approach to temporal relation extraction that casts the task as an interactive game. Instead of directly annotating interval-level relations, our approach decomposes them into point-wise comparisons between the start and end points of temporal entities. At each step, players classify a single point relation, and the system applies temporal closure to infer additional relations and enforce consistency. This point-based strategy naturally supports both interval and instant entities, enabling more fine-grained and flexible annotation than any previous approach. The Temporal Game also lays the groundwork for training reinforcement learning agents, by treating temporal annotation as a sequential decision-making task. To showcase this potential, the demo presented in this paper includes a Game mode, in which users annotate texts from the TempEval-3 dataset and receive feedback based on a scoring system, and an Annotation mode, that allows custom documents to be annotated and resulting timeline to be exported. Therefore, this demo serves both as a research tool and an annotation interface. The demo is publicly available at https://temporal-game.inesctec.pt, and the source code is open-sourced to foster further research and community-driven development in temporal reasoning and annotation. © 2025 Copyright held by the owner/author(s).
2025
Autores
Rabaev, I; Litvak, M; Bass, R; Campos, R; Jorge, AM; Jatowt, A;
Publicação
ICDAR (5)
Abstract
This report describes the ICDAR 2025 Competition on Automatic Classification of Literary Epochs (ICDAR 2025 CoLiE), which consisted of two tasks focused on automatic prediction of the time in which a book was written (date of first publication). Both tasks comprised two sub-tasks, where a related fine-grained classification was addressed. Task 1 consisted of the identification of literary epochs, such as Romanticism or Modernism (sub-task 1.1), and a more precise classification of the period within the epoch (sub-task 1.2). Task 2 addressed the chronological identification of century (sub-task 2.1) or decade (sub-task 2.2). The compiled dataset and the reported findings are valuable to the scientific community and contribute to advancing research in the automatic dating of texts and its applications in digital humanities and temporal text analysis.
2025
Autores
Campos, R; Jorge, AM; Jatowt, A; Bhatia, S; Litvak, M;
Publicação
Text2Story@ECIR
Abstract
The access to the final selection minute is only available to applicants.
Please check the confirmation e-mail of your application to obtain the access code.