PubTator 3.0: an AI-powered literature resource for unlocking biomedical knowledge
Wei C, Allot A, Lai P, Leaman R, Tian S, Luo L, Jin Q, Wang Z, Chen Q, Lu Z. PubTator 3.0: an AI-powered literature resource for unlocking biomedical knowledge. Nucleic Acids Research 2024, 52: w540-w546. PMID: 38572754, PMCID: PMC11223843, DOI: 10.1093/nar/gkae235.Peer-Reviewed Original ResearchState-of-the-art AI techniquesState-of-the-artComplex information needsAdvanced search capabilitiesPairs queriesEntity relationsRetrieval qualitySearch capabilityAI techniquesLiterature resourcesPubTatorInformation needsPubMed abstractsBiomedical literatureOnline interfaceLarge-scale analysisGenetic variantsBiomedical knowledgeAPIScientific discoveryComprehensive setChatGPTQueryVerifiabilityRetrievalGeneGPT: augmenting large language models with domain tools for improved access to biomedical information
Jin Q, Yang Y, Chen Q, Lu Z. GeneGPT: augmenting large language models with domain tools for improved access to biomedical information. Bioinformatics 2024, 40: btae075. PMID: 38341654, PMCID: PMC10904143, DOI: 10.1093/bioinformatics/btae075.Peer-Reviewed Original ResearchAPI callsWeb APIsLanguage modelState-of-the-art performanceMulti-hop questionsState-of-the-artDomain-specific toolsDecoding algorithmNational Center for Biotechnology InformationGPT-3Biomedical informationDatabase utilizationExperimental resultsAPITaskDomain toolsLearningChatGPTSpecialized knowledgeInformationLanguageGenomic questionsAlgorithmDatasetBiotechnology InformationImproving large language models for clinical named entity recognition via prompt engineering
Hu Y, Chen Q, Du J, Peng X, Keloth V, Zuo X, Zhou Y, Li Z, Jiang X, Lu Z, Roberts K, Xu H. Improving large language models for clinical named entity recognition via prompt engineering. Journal Of The American Medical Informatics Association 2024, 31: 1812-1820. PMID: 38281112, PMCID: PMC11339492, DOI: 10.1093/jamia/ocad259.Peer-Reviewed Original ResearchClinical NER tasksNER taskTask-specific promptsEntity recognitionLanguage modelTraining samplesState-of-the-art modelsFew-shot learningState-of-the-artMinimal training dataTask-specific knowledgeF1-socreAnnotated samplesConcept extractionModel performanceAnnotated datasetsTraining dataF1 scoreTask descriptionFormat specificationsComplex clinical dataOptimal performanceTaskEvaluation schemaGPT model