Biomedical Information Retrieval
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Benchmarks
Most implemented
BEIR: A Heterogenous Benchmark for Zero-shot Evaluation of Information Retrieval Models
MedCPT: Contrastive Pre-trained Transformers with Large-scale PubMed Search Logs for Zero-shot Biomedical Information Retrieval
No Parameter Left Behind: How Distillation and Model Size Affect Zero-Shot Retrieval
SGPT: GPT Sentence Embeddings for Semantic Search
Querying Across Genres for Medical Claims in News
Papers
BioHiCL: Hierarchical Multi-Label Contrastive Learning for Biomedical Retrieval with MeSH Labels
Effective biomedical information retrieval requires modeling domain semantics and hierarchical relationships among biomedical texts. Existing biomedical generative retrievers build on coarse binary relevance signals, lim…
Biomedical Information RetrievalContrastive LearningQuestion AnsweringBioMedSearch: A Multi-Source Biomedical Retrieval Framework Based on LLMs
Biomedical queries often rely on a deep understanding of specialized knowledge such as gene regulatory mechanisms and pathological processes of diseases. They require detailed analysis of complex physiological processes …
Biomedical Information RetrievalQuestion AnsweringOntology-Guided Query Expansion for Biomedical Document Retrieval using Large Language Models
Effective Question Answering (QA) on large biomedical document collections requires effective document retrieval techniques. The latter remains a challenging task due to the domain-specific vocabulary and semantic ambigu…
Biomedical Information RetrievalQuestion AnsweringTowards Domain Specification of Embedding Models in Medicine
Medical text embedding models are foundational to a wide array of healthcare applications, ranging from clinical decision support and biomedical information retrieval to medical question answering, yet they remain hamper…
Biomedical Information RetrievalContrastive LearningQuestion AnsweringInterpretability Analysis of Domain Adapted Dense Retrievers
Dense retrievers have demonstrated significant potential for neural information retrieval; however, they exhibit a lack of robustness to domain shifts, thereby limiting their efficacy in zero-shot settings across diverse…
Biomedical Information RetrievalDomain AdaptationInformation RetrievalQuestion Answering+2MedCPT: Contrastive Pre-trained Transformers with Large-scale PubMed Search Logs for Zero-shot Biomedical Information Retrieval
Information retrieval (IR) is essential in biomedical knowledge acquisition and clinical decision support. While recent progress has shown that language model encoders perform better semantic retrieval, training such mod…
Biomedical Information RetrievalContrastive LearningInformation RetrievalLanguage Modeling+4