Salvato in:
| Autori principali: | , , |
|---|---|
| Natura: | Preprint |
| Pubblicazione: |
2025
|
| Soggetti: | |
| Accesso online: | https://arxiv.org/abs/2507.05577 |
| Tags: |
Aggiungi Tag
Nessun Tag, puoi essere il primo ad aggiungerne!!
|
| _version_ | 1866909678970077184 |
|---|---|
| author | Verma, Shashank Jiang, Fengyi Xue, Xiangning |
| author_facet | Verma, Shashank Jiang, Fengyi Xue, Xiangning |
| contents | Biomedical semantic question answering rooted in information retrieval can play a crucial role in keeping up to date with vast, rapidly evolving and ever-growing biomedical literature. A robust system can help researchers, healthcare professionals and even layman users access relevant knowledge grounded in evidence. The BioASQ 2025 Task13b Challenge serves as an important benchmark, offering a competitive platform for advancement of this space. This paper presents the methodologies and results from our participation in this challenge where we built a Retrieval-Augmented Generation (RAG) system that can answer biomedical questions by retrieving relevant PubMed documents and snippets to generate answers. For the retrieval task, we generated dense embeddings from biomedical articles for initial retrieval, and applied an ensemble of finetuned cross-encoders and large language models (LLMs) for re-ranking to identify top relevant documents. Our solution achieved an MAP@10 of 0.1581, placing 10th on the leaderboard for the retrieval task. For answer generation, we employed few-shot prompting of instruction-tuned LLMs. Our system achieved macro-F1 score of 0.95 for yes/no questions (rank 12), Mean Reciprocal Rank (MRR) of 0.64 for factoid questions (rank 1), mean-F1 score of 0.63 for list questions (rank 5), and ROUGE-SU4 F1 score of 0.29 for ideal answers (rank 11). |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2507_05577 |
| institution | arXiv |
| publishDate | 2025 |
| record_format | arxiv |
| spellingShingle | Beyond Retrieval: Ensembling Cross-Encoders and GPT Rerankers with LLMs for Biomedical QA Verma, Shashank Jiang, Fengyi Xue, Xiangning Information Retrieval Computation and Language Machine Learning Biomedical semantic question answering rooted in information retrieval can play a crucial role in keeping up to date with vast, rapidly evolving and ever-growing biomedical literature. A robust system can help researchers, healthcare professionals and even layman users access relevant knowledge grounded in evidence. The BioASQ 2025 Task13b Challenge serves as an important benchmark, offering a competitive platform for advancement of this space. This paper presents the methodologies and results from our participation in this challenge where we built a Retrieval-Augmented Generation (RAG) system that can answer biomedical questions by retrieving relevant PubMed documents and snippets to generate answers. For the retrieval task, we generated dense embeddings from biomedical articles for initial retrieval, and applied an ensemble of finetuned cross-encoders and large language models (LLMs) for re-ranking to identify top relevant documents. Our solution achieved an MAP@10 of 0.1581, placing 10th on the leaderboard for the retrieval task. For answer generation, we employed few-shot prompting of instruction-tuned LLMs. Our system achieved macro-F1 score of 0.95 for yes/no questions (rank 12), Mean Reciprocal Rank (MRR) of 0.64 for factoid questions (rank 1), mean-F1 score of 0.63 for list questions (rank 5), and ROUGE-SU4 F1 score of 0.29 for ideal answers (rank 11). |
| title | Beyond Retrieval: Ensembling Cross-Encoders and GPT Rerankers with LLMs for Biomedical QA |
| topic | Information Retrieval Computation and Language Machine Learning |
| url | https://arxiv.org/abs/2507.05577 |