2017
MiRIAD update: using alternative polyadenylation, protein interaction network analysis and additional species to enhance exploration of the role of intragenic miRNAs and their host genes
Hinske L, dos Santos F, Ohara D, Ohno-Machado L, Kreth S, Galante P. MiRIAD update: using alternative polyadenylation, protein interaction network analysis and additional species to enhance exploration of the role of intragenic miRNAs and their host genes. Database 2017, 2017: bax053. PMID: 29220447, PMCID: PMC5569676, DOI: 10.1093/database/bax053.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsDatabases, GeneticEpigenomicsHumansMicroRNAsPolyadenylationProtein Interaction MappingUser-Computer Interface
2011
Natural language processing: an introduction
Nadkarni PM, Ohno-Machado L, Chapman WW. Natural language processing: an introduction. Journal Of The American Medical Informatics Association 2011, 18: 544-551. PMID: 21846786, PMCID: PMC3168328, DOI: 10.1136/amiajnl-2011-000464.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus Statements
2010
DSGeo: Software tools for cross-platform analysis of gene expression data in GEO
Lacson R, Pitzer E, Kim J, Galante P, Hinske C, Ohno-Machado L. DSGeo: Software tools for cross-platform analysis of gene expression data in GEO. Journal Of Biomedical Informatics 2010, 43: 709-715. PMID: 20435161, PMCID: PMC2934864, DOI: 10.1016/j.jbi.2010.04.007.Peer-Reviewed Original ResearchConceptsAggregation of dataData loaderRelational databaseGene expression dataUser preferencesData browserData browsingCross-platform dataSoftware toolsSeamless integrationCross-platform analysisGroups of dataQueriesExpression dataPublic gene expression dataSpecific sample characteristicsLarge resourcesBrowserToolBrowsingAnnotatingUsersRetrievalApplicationsPlatform
2007
Automatic correspondence of tags and genes (ACTG): a tool for the analysis of SAGE, MPSS and SBS data
Galante P, Trimarchi J, Cepko C, de Souza S, Ohno-Machado L, Kuo W. Automatic correspondence of tags and genes (ACTG): a tool for the analysis of SAGE, MPSS and SBS data. Bioinformatics 2007, 23: 903-905. PMID: 17277333, DOI: 10.1093/bioinformatics/btm023.Peer-Reviewed Original Research