无需标注数据,用多语言别名增强检索+大模型排序,提升跨语言医学实体链接效果。
BioELX: Cross-lingual Biomedical Entity Linking via Alias-based Retrieval and LLM Ranking

- 用维基数据别名扩充SapBERT训练,提升多语言检索能力
- 在多个基准上实现新最优,低资源语言如泰语提升30.8%
- 全程无监督,适合缺乏标注数据的医学跨语言任务
跨语言生物医学实体链接(BEL)将任意语言中的实体提及映射到生物医学知识库(KB)中的唯一标识符,支持临床与生物医学自然语言处理应用。然而,专家标注的贝尔训练数据成本高昂,尤其对低资源语言而言。此外,许多跨语言贝尔系统依赖以英语别名为主的SapBERT检索器,导致对未见非英语提及泛化能力差,且上下文消歧能力有限。我们提出BioELX,一种两阶段跨语言贝尔框架,无需特定任务标注语料。第一阶段,利用维基数据衍生的多语言别名扩充SapBERT训练,提升跨语言候选检索效果;第二阶段,使用预训练大模型进行上下文感知消歧,联合考虑提及上下文与候选项,无需监督训练。在五个基准(XL-BEL、EMEA、Patent、WikiMed-DE、MedMentions)上的实验表明,BioELX达到新最佳性能,在XL-BEL上平均召回率@1提升19.2%,尤其在低资源语言中表现突出:土耳其语+21.6,韩语+22.1,泰语+30.8,并在EMEA(+6.2)、Patent(+5.4)、WikiMed-DE(+12.8)上持续提升。代码与资源将在发表后公开。
原文摘要 · Abstract (English)
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 costly, especially for low-resource languages. Moreover, many cross-lingual BEL systems rely on SapBERT-based retrievers trained on predominantly English aliases in the KB, leading to poor generalization to unseen non-English mentions and limited context-aware disambiguation. We propose BioELX, a two-stage cross-lingual BEL framework that requires no task-specific annotated training corpora. In Stage~1, we enrich SapBERT training with Wikidata-derived multilingual aliases and use the resulting retriever to improve cross-lingual candidate retrieval. In Stage~2, we perform context-aware disambiguation with a pre-trained LLM ranker that jointly considers the mention context and candidate, eliminating the need for supervised training. Experiments on five benchmarks (XL-BEL, EMEA, Patent, WikiMed-DE, and MedMentions) show that BioELX achieves new state-of-the-art performance. It improves average Recall@1 on XL-BEL by +19.2, with especially large gains for low-resource languages, e.g., +21.6 on Turkish, +22.1 on Korean, +30.8 on Thai, and delivers consistent improvements on EMEA (+6.2), Patent (+5.4), and WikiMed-DE (+12.8). Code and resources will be released upon publication.
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