BELXTR: Biomedical Entity Linking via Contextualized Token Retrieval

Excerpt

arXiv:2609.25859v1 Announce Type: new Abstract: Biomedical Entity Linking disambiguates mentions to entities in a knowledge base (KB), making it the cornerstone of information extraction pipelines. While embedding-based models are a popular approach for the task, they suffer from a key limitation. They compress mentions (and entities) into a single vector, forcing the model to average away crucial fine-grained differences. We present BELXTR, a novel embedding model based on the multi-vector (a.k