Related papers: Biomedical Event Extraction with Hierarchical Know…

We present a novel system that automatically extracts and generates informative and descriptive sentences from the biomedical corpus and facilitates the efficient search for relational knowledge. Unlike previous search engines or…

Events are essential components of speech and texts, describing the changes in the state of entities. The event extraction task aims to identify and classify events and find their participants according to event schemas. Manually predefined…

We consider the problem of collectively detecting multiple events, particularly in cross-sentence settings. The key to dealing with the problem is to encode semantic information and model event inter-dependency at a document-level. In this…

The surging amount of biomedical literature & digital clinical records presents a growing need for text mining techniques that can not only identify but also semantically relate entities in unstructured data. In this paper we propose a text…

Contextual word embedding models, such as BioBERT and Bio_ClinicalBERT, have achieved state-of-the-art results in biomedical natural language processing tasks by focusing their pre-training process on domain-specific corpora. However, such…

Clinical texts, represented in electronic medical records (EMRs), contain rich medical information and are essential for disease prediction, personalised information recommendation, clinical decision support, and medication pattern mining…

The objective of our work is to demonstrate the feasibility of utilizing deep learning models to extract safety signals related to the use of dietary supplements (DS) in clinical text. Two tasks were performed in this study. For the named…

Event mentions in text correspond to real-world events of varying degrees of granularity. The task of subevent detection aims to resolve this granularity issue, recognizing the membership of multi-granular events in event complexes. Since…

Real-world events exhibit a high degree of interdependence and connections, and hence data points generated also inherit the linkages. However, the majority of AI/ML techniques leave out the linkages among data points. The recent surge of…

Extracting information from electronic health records (EHR) is a challenging task since it requires prior knowledge of the reports and some natural language processing algorithm (NLP). With the growing number of EHR implementations, such…

Extracting understanding from the growing ``sea'' of biological and socio-economic data is one of the most pressing scientific challenges facing us. Here, we introduce and validate an unsupervised method that is able to accurately extract…

Multi-omics data offer unprecedented insights into complex biological systems, yet their high dimensionality, sparsity, and intricate interactions pose significant analytical challenges. Network-based approaches have advanced multi-omics…

Media outlets are becoming more partisan and polarized nowadays. In this paper, we identify media bias at the sentence level, and pinpoint bias sentences that intend to sway readers' opinions. As bias sentences are often expressed in a…

Biomedical knowledge graphs (KGs) hold rich information on entities such as diseases, drugs, and genes. Predicting missing links in these graphs can boost many important applications, such as drug design and repurposing. Recent work has…

To minimize the accelerating amount of time invested in the biomedical literature search, numerous approaches for automated knowledge extraction have been proposed. Relation extraction is one such task where semantic relations between the…

Information extraction techniques, including named entity recognition (NER) and relation extraction (RE), are crucial in many domains to support making sense of vast amounts of unstructured text data by identifying and connecting relevant…

Predicting patient mortality is an important and challenging problem in the healthcare domain, especially for intensive care unit (ICU) patients. Electronic health notes serve as a rich source for learning patient representations, that can…

Electronic Health Records are large repositories of valuable clinical data, with a significant portion stored in unstructured text format. This textual data includes clinical events (e.g., disorders, symptoms, findings, medications and…

Relation extraction as an important natural Language processing (NLP) task is to identify relations between named entities in text. Recently, graph convolutional networks over dependency trees have been widely used to capture syntactic…

Biomedical entity linking (BioEL) has achieved remarkable progress with the help of pre-trained language models. However, existing BioEL methods usually struggle to handle rare and difficult entities due to long-tailed distribution. To…