Computational medicine research requires clinical data for training and testing purposes, so the development of datasets composed of real hospital data is of utmost importance in this field. Most such data collections are in the English language, were collected in anglophone countries, and do not reflect other clinical realities, which increases the importance of national datasets for projects that hope to positively impact public health. This paper presents a new Brazilian Clinical Dataset containing over 70,000 admissions from 10 hospitals in two Brazilian states, composed of a sum total of over 2.5 million free-text clinical notes alongside data pertaining to patient information, prescription information, and exam results. This data was collected, organized, deidentified, and is being distributed via credentialed access for the use of the research community. In the course of presenting the new dataset, this paper will explore the new dataset’s structure, population, and potential benefits of using this dataset in clinical AI tasks.

This work focuses on Portuguese Named Entity Recognition (NER) in the Geology domain. The only domain-specific dataset in the Portuguese language annotated for NER is the GeoCorpus. Our approach relies on BiLSTM-CRF neural networks (a widely used type of network for this area of research) that use vector and tensor embedding representations. Three types of embedding models were used (Word Embeddings, Flair Embeddings, and Stacked Embeddings) under two versions (domain-specific and generalized). The domain specific Flair Embeddings model was originally trained with a generalized context in mind, but was then fine-tuned with domain-specific Oil and Gas corpora, as there simply was not enough domain corpora to properly train such a model. Each of these embeddings was evaluated separately, as well as stacked with another embedding. Finally, we achieved state-of-the-art results for this domain with one of our embeddings, and we performed an error analysis on the language model that achieved the best results. Furthermore, we investigated the effects of domain-specific versus generalized embeddings.

Language Models have long been a prolific area of study in the field of Natural Language Processing (NLP). One of the newer kinds of language models, and some of the most used, are Word Embeddings (WE). WE are vector space representations of a vocabulary learned by a non-supervised neural network based on the context in which words appear. WE have been widely used in downstream tasks in many areas of study in NLP. These areas usually use these vector models as a feature in the processing of textual data. This paper presents the evaluation of newly released WE models for the Portuguese langauage, trained with a corpus composed of 4.9 billion tokens. The first evaluation presented an intrinsic task in which WEs had to correctly build semantic and syntactic relations. The second evaluation presented an extrinsic task in which the WE models were used in two downstream tasks: Named Entity Recognition and Semantic Similarity between Sentences. Our results show that a diverse and comprehensive corpus can often outperform a larger, less textually diverse corpus, and that batch training may cause quality loss in WE models.