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In recent years extracting relevant information from biomedical and clinical texts such as research articles, discharge summaries, or electronic health records have been a subject of many research efforts and shared challenges. Relation…
Joint entity-relation extraction is a critical task in transforming unstructured or semi-structured text into triplets, facilitating the construction of large-scale knowledge graphs, and supporting various downstream applications. Despite…
Extracting biomedical relations from large corpora of scientific documents is a challenging natural language processing task. Existing approaches usually focus on identifying a relation either in a single sentence (mention-level) or across…
The joint entity and relation extraction task aims to extract all relational triples from a sentence. In essence, the relational triples contained in a sentence are unordered. However, previous seq2seq based models require to convert 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.…
Joint entity and relation extraction is an essential task in natural language processing and knowledge graph construction. Existing approaches usually decompose the joint extraction task into several basic modules or processing steps to…
Named Entity Recognition and Relation Extraction are two crucial and challenging subtasks in the field of Information Extraction. Despite the successes achieved by the traditional approaches, fundamental research questions remain open.…
Document-level relation extraction (RE) aims to extract the relations between entities from the input document that usually containing many difficultly-predicted entity pairs whose relations can only be predicted through relational…
Document-Level Biomedical Relation Extraction (Bio-RE) aims to identify relations between biomedical entities within extensive texts, serving as a crucial subfield of biomedical text mining. Existing Bio-RE methods struggle with…
Most work in relation extraction forms a prediction by looking at a short span of text within a single sentence containing a single entity pair mention. However, many relation types, particularly in biomedical text, are expressed across…
Negative medical findings are prevalent in clinical reports, yet discriminating them from positive findings remains a challenging task for information extraction. Most of the existing systems treat this task as a pipeline of two separate…
Recent span-based joint extraction models have demonstrated significant advantages in both entity recognition and relation extraction. These models treat text spans as candidate entities, and span pairs as candidate relationship tuples,…
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…
The idea of using multi-task learning approaches to address the joint extraction of entity and relation is motivated by the relatedness between the entity recognition task and the relation classification task. Existing methods using…
Biomedical entity linking is the task of identifying mentions of biomedical concepts in text documents and mapping them to canonical entities in a target thesaurus. Recent advancements in entity linking using BERT-based models follow a…
Medical knowledge extraction methods based on edge computing deploy deep learning models on edge devices to achieve localized entity and relation extraction. This approach avoids transferring substantial sensitive data to cloud data…
Motivation: State-of-the-art biomedical named entity recognition (BioNER) systems often require handcrafted features specific to each entity type, such as genes, chemicals and diseases. Although recent studies explored using neural network…
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…
Sentence-level relation extraction mainly aims to classify the relation between two entities in a sentence. The sentence-level relation extraction corpus often contains data that are difficult for the model to infer or noise data. In this…
Usually, entity relation recognition systems either use a pipe-lined model that treats the entity tagging and relation identification as separate tasks or a joint model that simultaneously identifies the relation and entities. This paper…