Related papers: Exploring Partial Knowledge Base Inference in Biom…

Biomedical entity linking (BEL) is the task of grounding entity mentions to a knowledge base. It plays a vital role in information extraction pipelines for the life sciences literature. We review recent work in the field and find that, as…

Entity linking models have achieved significant success via utilizing pretrained language models to capture semantic features. However, the NIL prediction problem, which aims to identify mentions without a corresponding entity in the…

Entities lie in the heart of biomedical natural language understanding, and the biomedical entity linking (EL) task remains challenging due to the fine-grained and diversiform concept names. Generative methods achieve remarkable…

Discovering entity mentions that are out of a Knowledge Base (KB) from texts plays a critical role in KB maintenance, but has not yet been fully explored. The current methods are mostly limited to the simple threshold-based approach and…

Automatic extraction of funding information from academic articles adds significant value to industry and research communities, such as tracking research outcomes by funding organizations, profiling researchers and universities based on the…

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…

Entity linking (EL) is the process of linking entity mentions appearing in web text with their corresponding entities in a knowledge base. EL plays an important role in the fields of knowledge engineering and data mining, underlying a…

Motivation: Named Entity Recognition (NER) is a key task to support biomedical research. In Biomedical Named Entity Recognition (BioNER), obtaining high-quality expert annotated data is laborious and expensive, leading to the development of…

Biomedical entity linking aims to map biomedical mentions, such as diseases and drugs, to standard entities in a given knowledge base. The specific challenge in this context is that the same biomedical entity can have a wide range of names,…

Biomedical entity linking (BEL) is the task of grounding entity mentions to a knowledge base (KB). A popular approach to the task are name-based methods, i.e. those identifying the most appropriate name in the KB for a given mention, either…

Due to large number of entities in biomedical knowledge bases, only a small fraction of entities have corresponding labelled training data. This necessitates entity linking models which are able to link mentions of unseen entities using…

Large language models (LLMs) have demonstrated dominating performance in many NLP tasks, especially on generative tasks. However, they often fall short in some information extraction tasks, particularly those requiring domain-specific…

Named entity disambiguation (NED), which involves mapping textual mentions to structured entities, is particularly challenging in the medical domain due to the presence of rare entities. Existing approaches are limited by the presence of…

In entity linking, mentions of named entities in raw text are disambiguated against a knowledge base (KB). This work focuses on linking to unseen KBs that do not have training data and whose schema is unknown during training. Our approach…

Named entity recognition (NER) and entity linking (EL) are two fundamentally related tasks, since in order to perform EL, first the mentions to entities have to be detected. However, most entity linking approaches disregard the mention…

In many information extraction applications, entity linking (EL) has emerged as a crucial task that allows leveraging information about named entities from a knowledge base. In this paper, we address the task of multimodal entity linking…

We propose a simple and practical method for named entity linking (NEL), based on entity representation by multiple embeddings. To explore this method, and to review its dependency on parameters, we measure its performance on Namesakes, a…

Cross-lingual biomedical entity linking (BEL) maps mentions in any language to unique identifiers in a biomedical knowledge base (KB), supporting clinical and biomedical NLP applications. However, expert-annotated training data for BEL are…

We present a weakly-supervised data augmentation approach to improve Named Entity Recognition (NER) in a challenging domain: extracting biomedical entities (e.g., proteins) from the scientific literature. First, we train a neural NER (NNER)…

Entity Linking (EL) is the task of detecting mentions of entities in text and disambiguating them to a reference knowledge base. Most prevalent EL approaches assume that the reference knowledge base is complete. In practice, however, it is…