Related papers: Extracting Adverse Drug Events from Clinical Notes

Drug-drug interaction (DDI) is a vital information when physicians and pharmacists intend to co-administer two or more drugs. Thus, several DDI databases are constructed to avoid mistakenly combined use. In recent years, automatically…

Event extraction (EE) is a fundamental task in natural language processing (NLP) that involves identifying and extracting event information from unstructured text. Effective EE in real-world scenarios requires two key steps: selecting…

Capturing interactions among event arguments is an essential step towards robust event argument extraction (EAE). However, existing efforts in this direction suffer from two limitations: 1) The argument role type information of contextual…

Clinical trials are the basis of Evidence-Based Medicine. Trial results are reviewed by experts and consensus panels for producing meta-analyses and clinical practice guidelines. However, reviewing these results is a long and tedious task,…

Language models hold incredible promise for enabling scientific discovery by synthesizing massive research corpora. Many complex scientific research questions have multiple plausible answers, each supported by evidence of varying strength.…

Event Argument extraction refers to the task of extracting structured information from unstructured text for a particular event of interest. The existing works exhibit poor capabilities to extract causal event arguments like Reason and…

This paper applies risk analysis to medical problems, through the properties of nonlinear responses (convex or concave). It shows 1) necessary relations between the nonlinearity of dose-response and the statistical properties of the…

Relation extraction is a fundamental problem in natural language processing. Most existing models are defined for relation extraction in the general domain. However, their performance on specific domains (e.g., biomedicine) is yet unclear.…

Estimating treatment effects is of great importance for many biomedical applications with observational data. Particularly, interpretability of the treatment effects is preferable for many biomedical researchers. In this paper, we first…

Most information extraction methods focus on binary relations expressed within single sentences. In high-value domains, however, $n$-ary relations are of great demand (e.g., drug-gene-mutation interactions in precision oncology). Such…

Understanding medication events in clinical narratives is essential to achieving a complete picture of a patient's medication history. While prior research has explored classification of medication changes from clinical notes, studies to…

The inherent ambiguity of cause and effect boundaries poses a challenge in evaluating causal event extraction tasks. Traditional metrics like Exact Match and BertScore poorly reflect model performance, so we trained evaluation models to…

This work aims to delve deeper into prompt-based event argument extraction (EAE) models. We explore the impact of incorporating various types of information into the prompt on model performance, including trigger, other role arguments for…

Event argument extraction (EAE) has been well studied at the sentence level but under-explored at the document level. In this paper, we study to capture event arguments that actually spread across sentences in documents. Prior works usually…

Problem lists are intended to provide clinicians with a relevant summary of patient medical issues and are embedded in many electronic health record systems. Despite their importance, problem lists are often cluttered with resolved or…

This paper proposes an approach to analyze an event log of a business process in order to generate case-level recommendations of treatments that maximize the probability of a given outcome. Users classify the attributes in the event log…

The primary goal of drug safety researchers and regulators is to promptly identify adverse drug reactions. Doing so may in turn prevent or reduce the harm to patients and ultimately improve public health. Evaluating and monitoring drug…

Objectives: With accurate estimates of expected safety results, clinical trials could be better designed and monitored. We evaluated methods for predicting serious adverse event (SAE) results in clinical trials using information only from…

Complex or co-existing diseases are commonly treated using drug combinations, which can lead to higher risk of adverse side effects. The detection of polypharmacy side effects is usually done in Phase IV clinical trials, but there are still…

Examining Drug-Drug Interactions (DDIs) is a pivotal element in the process of drug development. DDIs occur when one drug's properties are affected by the inclusion of other drugs. Detecting favorable DDIs has the potential to pave the way…