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Entity Linking (EL) is the gateway into Knowledge Bases. Recent advances in EL utilize dense retrieval approaches for Candidate Generation, which addresses some of the shortcomings of the Lookup based approach of matching NER mentions…

Medical Visual Question Answering (VQA) is an important challenge, as it would lead to faster and more accurate diagnoses and treatment decisions. Most existing methods approach it as a multi-class classification problem, which restricts…

Entity alignment (EA) is to discover equivalent entities in knowledge graphs (KGs), which bridges heterogeneous sources of information and facilitates the integration of knowledge. Existing EA solutions mainly rely on structural information…

Biomedical entity linking (EL) consists of named entity recognition (NER) and named entity disambiguation (NED). EL models are trained on corpora labeled by a predefined KB. However, it is a common scenario that only entities within a…

Entity linking (EL) for biomedical text is typically benchmarked on English-only corpora with flat mentions, leaving the more realistic scenario of nested and multilingual mentions largely unexplored. We present our system for the BioNNE…

Biomedical Question Answering (BQA) has attracted increasing attention in recent years due to its promising application prospect. It is a challenging task because the biomedical questions are professional and usually vary widely. Existing…

Cross-lingual entity linking (XEL) is the task of finding referents in a target-language knowledge base (KB) for mentions extracted from source-language texts. The first step of (X)EL is candidate generation, which retrieves a list of…

We present JEL, a novel computationally efficient end-to-end multi-neural network based entity linking model, which beats current state-of-art model. Knowledge Graphs have emerged as a compelling abstraction for capturing critical…

Multimodal Large Language Models (MLLMs) have shown transformative potential in medical applications, yet their performance is hindered by conventional data curation strategies that rely on coarse-grained partitioning by modality or…

Despite their strong linguistic capabilities, Large Language Models (LLMs) are computationally demanding and require substantial resources for fine-tuning, which is unadapted to privacy and budget constraints of many healthcare settings. To…

Pretrained language models have shown success in many natural language processing tasks. Many works explore incorporating knowledge into language models. In the biomedical domain, experts have taken decades of effort on building large-scale…

Entity Linking is one of the most common Natural Language Processing tasks in practical applications, but so far efficient end-to-end solutions with multilingual coverage have been lacking, leading to complex model stacks. To fill this gap,…

Entity linking (EL) is the task of linking a textual mention to its corresponding entry in a knowledge base, and is critical for many knowledge-intensive NLP applications. When applied to tables in scientific papers, EL is a step toward…

Biomedical entity linking, a main component in automatic information extraction from health-related texts, plays a pivotal role in connecting textual entities (such as diseases, drugs and body parts mentioned by patients) to their…

Fine-grained entity typing is a challenging problem since it usually involves a relatively large tag set and may require to understand the context of the entity mention. In this paper, we use entity linking to help with the fine-grained…

In the medical domain, numerous scenarios necessitate the long-form generation ability of large language models (LLMs). Specifically, when addressing patients' questions, it is essential that the model's response conveys factual claims,…

Entity matching (EM) is a critical step in entity resolution (ER). Recently, entity matching based on large language models (LLMs) has shown great promise. However, current LLM-based entity matching approaches typically follow a binary…

The rapidly growth of biomedical literature creates challenges acquiring specific medical information. Current biomedical question-answering systems primarily focus on short-form answers, failing to provide comprehensive explanations…

Biological relation networks contain rich information for understanding the biological mechanisms behind the relationship of entities such as genes, proteins, diseases, and chemicals. The vast growth of biomedical literature poses…

Causal relation extraction of biomedical entities is one of the most complex tasks in biomedical text mining, which involves two kinds of information: entity relations and entity functions. One feasible approach is to take relation…