Program

BioASQ 2025 Workshop Schedule

* List of posters:

• Constrained Linked Entity ANnotation using RAG (CLEANR).
  • Benedikt Kantz, Stefan Lengauer, Peter Waldert and Tobias Schreck
• NCU-IISR: A Retrieval-Augmented Generation Approach for BioASQ 13b Phase A and A+.
  • Jen-Chieh Han, Bing-Chen Chih, Hsi-Chuan Hung and Richard Tzong-Han Tsai
• SCIRE at BioASQ 2025: LLM Driven Biomedical Named Entity Recognition for GutBrainIE 2025.
  • Harsh Prakash Gupta and Ritwik Banerjee
• AQAMS and AQAMS2: Multi Agent Systems for Biomedical Question Answering.
  • Johanna Angulo and Víctor Yeste
• Clinical Entity Recognition and Linking in Greek Discharge Letters using Multilingual-LLM-Based Multi-Stage System.
  • Bor-Woei Huang
• NCU-IISR: Biomedical Question Answering via Gemini and GPT APIs in the BioASQ 13b Phase B Challenge.
  • Bing-Chen Chih, Jen-Chieh Han, Hsi-Chuan Hung and Richard Tzong-Han Tsai
• Applying DeepSeek to BioASQ Task 13B: Using Supervised Fine-Tuning and Few-Shot Learning.
  • Jie Tang, Hua Yang, Kai Xiong, Hanyang Li, Paulo Quaresma, Hongbin Yu, Wenbo Zhang and Mingzhou Song
• From Named Entities to Relations: End-to-End Biomedical Information Extraction.
  • Ron Keinan, Amir David Nissan Cohen and Reut Tsarfaty
• Development of a Biomedical Question Answering System Based on Transformer Models.
  • Lila López, Juan C. Martinez-Santos and Edwin Puertas
• Prompting Matters: Snippet-Aware Strategies for Biomedical QA with LLMs in BioASQ 13b.
  • Hajung Kim, Hoonick Lee, Yewon Cho, Jungwoo Park, Jueon Park, Soyon Park, Yan Ting Chok, Seungheun Baek, Donghyeon Lee and Jaewoo Kang
• Named Entity Recognition with GLiNER and Relation Extraction with LLMs.
  • Samuel Piron and Giorgio Maria Di Nunzio
• BIBERT-Pipe on Biomedical Nested Named Entity Linking at BioASQ 2025.
  • Chunyu Li, Xindi Zheng and Siqi Liu
• NLP @VCU at BioASQ2025: Information Extraction on the GutBrainIE dataset.
  • Scott Taylor, Charlie Dil, Aaron Shah, Jannat, Cyd Oldham, Ayush Upadhyay, Joanne Varughese, Nicole Yazbeck and Bridget T. McInnes
• Are Smaller Open-Weight LLMs Closing the Gap to Proprietary Models for Biomedical Question Answering?.
  • Damian Stachura, Joanna Konieczna and Artur Nowak
• Biomedical Semantic Question Answering - Answering Systems Using Different LLMs for Subtasks.
  • Samitinjaya and Dipankar Das
• Enhancing Biomedical Named Entity Recognition using GLiNER-BioMed with Targeted Dictionary-Based Post-processing for BioASQ 2025 task 6.
  • Ritesh Mehta
• Comparing CRF vs BERT Models for Named Entity Recognition and Relation Extraction.
  • Lorenzo Pamio and Giorgio Maria Di Nunzio
• lasigeBioTM at BioASQ25 Task GutBrainIE - Lean Large Language Models with Syntactic Features.
  • Sofia I. R. Conceição, Paulo R. C. Lopes and Francisco M. Couto
• lasigeBioTM: A Lean Biomedical QA System Empowered by Structured Knowledge.
  • Paulo R. C. Lopes, Sofia I. R. Conceição, Maria Fernandes and Francisco M. Couto
• Multilingual and Nested Biomedical Named Entity Normalization via Candidate Retrieval and Lightweight Large Language Model Disambiguation.
  • Antoine D. Lain, Chaeeun Lee, Simona E. Doneva, Maria Juliana Rodriguez-Cubillos, Elisa Castagnari, T. Ian Simpson and Joram M. Posma
• Exploring Retrieval-Reranking and LLM-Based Answer Generation for Biomedical QA.
  • Poojan Vachharajani
• Multilingual Embedding and Prompt-Driven Approaches for Named Entity Recognition, Entity Linking, and Clinical Code Prediction in Greek Discharge Summaries.
  • Poojan Vachharajani
• Navigating Partial UMLS Terminology: GAT Embeddings and Confidence Analysis for Multilingual Concept Linking.
  • Albina Burlova
• LLM Ensemble for RAG: Role of context length in zero-shot Question Answering for BioASQ Challenge.
  • Dima Galat and Diego Molla-Aliod
• Using Decoder-Based Distillation for Enhancing Multilingual Clinical Case Report Summarization.
  • Nicolay Rusnachenko, Xiaoxiao Liu, Jian Chang and Jian Jun Zhang
• ExtraSum @ MultiClinSum: Extractive Summarization of English, Spanish, French and Portuguese Clinical Case Reports.
  • Soukaina Rhazzafe, Simon Colreavy-Donnelly and Nikola S. Nikolov
• Agentic MCS: A Multilingual Clinical Summarization Framework.
  • Johanna Angulo and Víctor Yeste
• MaLei at MultiClinSUM: Summarisation of Clinical Documents using Perspective-Aware Iterative Self-Prompting with LLMs.
  • Libo Ren, Yee Man Ng and Lifeng Han
• Group Relative Policy Optimization for Spanish Clinical Case Report Summarization.
  • Georgi Grazhdanski
• pjmathematician at MultiClinSUM 2025: A Novel Automated Prompt Optimization Framework for Multilingual Clinical Summarization.
  • Poojan Vachharajani