2022
Biomedical Literature Mining and Its Components
Raja K. Biomedical Literature Mining and Its Components. Methods In Molecular Biology 2022, 2496: 1-16. PMID: 35713856, DOI: 10.1007/978-1-0716-2305-3_1.Peer-Reviewed Original ResearchConceptsMining protocolInformation retrieval approachBiomedical literaturePublished biomedical articlesUser queriesMining tasksInformation retrievalInformation extractionKnowledge discoveryBiomedical textBiomedical entitiesBiomedical articlesRetrieval approachAutomatic extractionRetrieving informationMining approachRelevant documentsPubMed titlesManual extractionMiningSource of knowledgeDrug mentionsInformationExponential ratePopulation information
2019
LitSense: making sense of biomedical literature at sentence level
Allot A, Chen Q, Kim S, Alvarez R, Comeau D, Wilbur W, Lu Z. LitSense: making sense of biomedical literature at sentence level. Nucleic Acids Research 2019, 47: w594-w599. PMID: 31020319, PMCID: PMC6602490, DOI: 10.1093/nar/gkz289.Peer-Reviewed Original ResearchConceptsFirst web-based systemFilter search resultsNeural embedding approachBiomedical literatureUser-friendly interfaceWeb-based systemTerm-weighting approachUser queriesQuery formulationUnified accessKeyword matchesBiomedical entitiesSentence retrievalResults visualizationSearch resultsEmbedding approachCurrent toolsQueriesRetrievalSentence levelRare termsRelevant resultsSignificant effortsPrevious knowledgePubTator
2005
A Digital Atlas to Characterize the Mouse Brain Transcriptome
Carson JP, Ju T, Lu HC, Thaller C, Xu M, Pallas SL, Crair MC, Warren J, Chiu W, Eichele G. A Digital Atlas to Characterize the Mouse Brain Transcriptome. PLOS Computational Biology 2005, 1: e41. PMID: 16184189, PMCID: PMC1215388, DOI: 10.1371/journal.pcbi.0010041.Peer-Reviewed Original ResearchConceptsDigital atlasUser queriesQuery patternsAnnotation methodData modalitiesMassive amountsTypes of dataExpression patternsMouse brain transcriptomeGene expression patternsComputational methodsCommon framePostnatal mouse brainBrain transcriptomeQueriesCandidate genesComplex tissuesCellular resolutionGenes
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