A Dataset for Pharmacovigilance in German, French, and Japanese: Annotating Adverse Drug Reactions across Languages

User-generated data sources have gained significance in uncovering Adverse Drug Reactions (ADRs), with an increasing number of discussions occurring in the digital world. However, the existing clinical corpora predominantly revolve around scientific articles in English. This work presents a multilingual corpus of texts concerning ADRs gathered from diverse sources, including patient fora, social media, and clinical reports in German, French, and Japanese. Our corpus contains annotations covering 12 entity types, four attribute types, and 13 relation types. It contributes to the development of real-world multilingual language models for healthcare. We provide statistics to highlight certain challenges associated with the corpus and conduct preliminary experiments resulting in strong baselines for extracting entities and relations between these entities, both within and across languages.

Annotation-Scheme Reconstruction for "Fake News" and Japanese Fake News Dataset

Fake news provokes many societal problems; therefore, there has been extensive research on fake news detection tasks to counter it. Many fake news datasets were constructed as resources to facilitate this task. Contemporary research focuses almost exclusively on the factuality aspect of the news. However, this aspect alone is insufficient to explain "fake news," which is a complex phenomenon that involves a wide range of issues. To fully understand the nature of each instance of fake news, it is important to observe it from various perspectives, such as the intention of the false news disseminator, the harmfulness of the news to our society, and the target of the news. We propose a novel annotation scheme with fine-grained labeling based on detailed investigations of existing fake news datasets to capture these various aspects of fake news. Using the annotation scheme, we construct and publish the first Japanese fake news dataset. The annotation scheme is expected to provide an in-depth understanding of fake news. We plan to build datasets for both Japanese and other languages using our scheme. Our Japanese dataset is published at https://hkefka385.github.io/dataset/fakenews-japanese/.

JaMIE: A Pipeline Japanese Medical Information Extraction System

We present an open-access natural language processing toolkit for Japanese medical information extraction. We first propose a novel relation annotation schema for investigating the medical and temporal relations between medical entities in Japanese medical reports. We experiment with the practical annotation scenarios by separately annotating two different types of reports. We design a pipeline system with three components for recognizing medical entities, classifying entity modalities, and extracting relations. The empirical results show accurate analyzing performance and suggest the satisfactory annotation quality, the effective annotation strategy for targeting report types, and the superiority of the latest contextual embedding models.

Mitigation of Diachronic Bias in Fake News Detection Dataset

Fake news causes significant damage to society.To deal with these fake news, several studies on building detection models and arranging datasets have been conducted. Most of the fake news datasets depend on a specific time period. Consequently, the detection models trained on such a dataset have difficulty detecting novel fake news generated by political changes and social changes; they may possibly result in biased output from the input, including specific person names and organizational names. We refer to this problem as \textbf{Diachronic Bias} because it is caused by the creation date of news in each dataset. In this study, we confirm the bias, especially proper nouns including person names, from the deviation of phrase appearances in each dataset. Based on these findings, we propose masking methods using Wikidata to mitigate the influence of person names and validate whether they make fake news detection models robust through experiments with in-domain and out-of-domain data.

Single Model for Influenza Forecasting of Multiple Countries by Multi-task Learning

The accurate forecasting of infectious epidemic diseases such as influenza is a crucial task undertaken by medical institutions. Although numerous flu forecasting methods and models based mainly on historical flu activity data and online user-generated contents have been proposed in previous studies, no flu forecasting model targeting multiple countries using two types of data exists at present. Our paper leverages multi-task learning to tackle the challenge of building one flu forecasting model targeting multiple countries; each country as each task. Also, to develop the flu prediction model with higher performance, we solved two issues; finding suitable search queries, which are part of the user-generated contents, and how to leverage search queries efficiently in the model creation. For the first issue, we propose the transfer approaches from English to other languages. For the second issue, we propose a novel flu forecasting model that takes advantage of search queries using an attention mechanism and extend the model to a multi-task model for multiple countries' flu forecasts. Experiments on forecasting flu epidemics in five countries demonstrate that our model significantly improved the performance by leveraging the search queries and multi-task learning compared to the baselines.

Biomedical Entity Linking with Contrastive Context Matching

We introduce BioCoM, a contrastive learning framework for biomedical entity linking that uses only two resources: a small-sized dictionary and a large number of raw biomedical articles. Specifically, we build the training instances from raw PubMed articles by dictionary matching and use them to train a context-aware entity linking model with contrastive learning. We predict the normalized biomedical entity at inference time through a nearest-neighbor search. Results found that BioCoM substantially outperforms state-of-the-art models, especially in low-resource settings, by effectively using the context of the entities.

End-to-end Biomedical Entity Linking with Span-based Dictionary Matching

Disease name recognition and normalization, which is generally called biomedical entity linking, is a fundamental process in biomedical text mining. Recently, neural joint learning of both tasks has been proposed to utilize the mutual benefits. While this approach achieves high performance, disease concepts that do not appear in the training dataset cannot be accurately predicted. This study introduces a novel end-to-end approach that combines span representations with dictionary-matching features to address this problem. Our model handles unseen concepts by referring to a dictionary while maintaining the performance of neural network-based models, in an end-to-end fashion. Experiments using two major datasets demonstrate that our model achieved competitive results with strong baselines, especially for unseen concepts during training.

KART: Privacy Leakage Framework of Language Models Pre-trained with Clinical Records

Nowadays, mainstream natural language pro-cessing (NLP) is empowered by pre-trained language models. In the biomedical domain, only models pre-trained with anonymized data have been published. This policy is acceptable, but there are two questions: Can the privacy policy of language models be different from that of data? What happens if private language models are accidentally made public? We empirically evaluated the privacy risk of language models, using several BERT models pre-trained with MIMIC-III corpus in different data anonymity and corpus sizes. We simulated model inversion attacks to obtain the clinical information of target individuals, whose full names are already known to attackers. The BERT models were probably low-risk because the Top-100 accuracy of each attack was far below expected by chance. Moreover, most privacy leakage situations have several common primary factors; therefore, we formalized various privacy leakage scenarios under a universal novel framework named Knowledge, Anonymization, Resource, and Target (KART) framework. The KART framework helps parameterize complex privacy leakage scenarios and simplifies the comprehensive evaluation. Since the concept of the KART framework is domain agnostic, it can contribute to the establishment of privacy guidelines of language models beyond the biomedical domain.

Learning to Select, Track, and Generate for Data-to-Text

We propose a data-to-text generation model with two modules, one for tracking and the other for text generation. Our tracking module selects and keeps track of salient information and memorizes which record has been mentioned. Our generation module generates a summary conditioned on the state of tracking module. Our model is considered to simulate the human-like writing process that gradually selects the information by determining the intermediate variables while writing the summary. In addition, we also explore the effectiveness of the writer information for generation. Experimental results show that our model outperforms existing models in all evaluation metrics even without writer information. Incorporating writer information further improves the performance, contributing to content planning and surface realization.