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Traditional document similarity measures provide a coarse-grained distinction between similar and dissimilar documents. Typically, they do not consider in what aspects two documents are similar. This limits the granularity of applications…
Objective: Automatic text summarization tools can help users in the biomedical domain to access information efficiently from a large volume of scientific literature and other sources of text documents. In this paper, we propose a…
We experiment with two recent contextualized word embedding methods (ELMo and BERT) in the context of open-domain argument search. For the first time, we show how to leverage the power of contextualized word embeddings to classify and…
Contextualized word embeddings derived from pre-trained language models (LMs) show significant improvements on downstream NLP tasks. Pre-training on domain-specific corpora, such as biomedical articles, further improves their performance.…
Claims are a fundamental unit of scientific discourse. The exponential growth in the number of scientific publications makes automatic claim extraction an important problem for researchers who are overwhelmed by this information overload.…
Extracting fine-grained experimental findings from literature can provide dramatic utility for scientific applications. Prior work has developed annotation schemas and datasets for limited aspects of this problem, failing to capture the…
The delivery of appropriate targeted therapies to cancer patients requires the complete analysis of the molecular profiling of tumors and the patient's clinical characteristics in the context of existing knowledge and recent findings…
Biomedical named entity recognition (NER) is a critial task that aims to identify structured information in clinical text, which is often replete with complex, technical terms and a high degree of variability. Accurate and reliable NER can…
Medication errors most commonly occur at the ordering or prescribing stage, potentially leading to medical complications and poor health outcomes. While it is possible to catch these errors using different techniques; the focus of this work…
Biomedical research encompasses diverse types of activities, from basic science ("bench") to clinical medicine ("bedside") to bench-to-bedside translational research. It, however, remains unclear whether different types of research receive…
This paper surveys and organizes research works in an under-studied area, which we call automated evaluation for student argumentative writing. Unlike traditional automated writing evaluation that focuses on holistic essay scoring, this…
Being able to extract from scientific papers their main points, key insights, and other important information, referred to here as aspects, might facilitate the process of conducting a scientific literature review. Therefore, the aim of our…
Clinical trials offer a fundamental opportunity to discover new treatments and advance the medical knowledge. However, the uncertainty of the outcome of a trial can lead to unforeseen costs and setbacks. In this study, we propose a new…
The scientific literature is growing exponentially, and professionals are no more able to cope with the current amount of publications. Text mining provided in the past methods to retrieve and extract information from text; however, most of…
In this article, we present a novel approach for parsing argumentation structures. We identify argument components using sequence labeling at the token level and apply a new joint model for detecting argumentation structures. The proposed…
Accurately and consistently indexing biomedical literature by publication type and study design is essential for supporting evidence synthesis and knowledge discovery. Prior work on automated publication type and study design indexing has…
The growing volume of biomedical scholarly document abstracts presents an increasing challenge in efficiently retrieving accurate and relevant information. To address this, we introduce a novel approach that integrates an optimized topic…
Identifying articles that relate to infectious diseases is a necessary step for any automatic bio-surveillance system that monitors news articles from the Internet. Unlike scientific articles which are available in a strongly structured…
From daily discussions to marketing ads to political statements, information manipulation is rife. It is increasingly more important that we have the right set of tools to defend ourselves from manipulative rhetoric, or fallacies. Suitable…
This study aims at improving the performance of scoring student responses in science education automatically. BERT-based language models have shown significant superiority over traditional NLP models in various language-related tasks.…