2012
A semantic web framework to integrate cancer omics data with biological knowledge
Holford ME, McCusker JP, Cheung KH, Krauthammer M. A semantic web framework to integrate cancer omics data with biological knowledge. BMC Bioinformatics 2012, 13: s10. PMID: 22373303, PMCID: PMC3471346, DOI: 10.1186/1471-2105-13-s1-s10.Peer-Reviewed Original ResearchConceptsBiological knowledgeOmics dataSemantic modelFundamental biological knowledgeGene ontology dataCancer omics dataEpigenomic dataRegulatory networksSemantic Web technologiesTranscription factorsSemantic Web frameworkUnified data sourceGene promoterDemethylating agentApoptosis pathwayAnti-cancer therapySemantic WebSPARQL endpointsWeb technologiesRDF triplesWeb frameworkOntology dataData warehouseUniform interfaceReasoning tools
2010
Structured digital tables on the Semantic Web: toward a structured digital literature
Cheung KH, Samwald M, Auerbach RK, Gerstein MB. Structured digital tables on the Semantic Web: toward a structured digital literature. Molecular Systems Biology 2010, 6: msb201045. PMID: 20739925, PMCID: PMC2950080, DOI: 10.1038/msb.2010.45.Peer-Reviewed Original Research
2007
AlzPharm: integration of neurodegeneration data using RDF
Lam H, Marenco L, Clark T, Gao Y, Kinoshita J, Shepherd G, Miller P, Wu E, Wong GT, Liu N, Crasto C, Morse T, Stephens S, Cheung KH. AlzPharm: integration of neurodegeneration data using RDF. BMC Bioinformatics 2007, 8: s4. PMID: 17493287, PMCID: PMC1892101, DOI: 10.1186/1471-2105-8-s3-s4.Peer-Reviewed Original ResearchMeSH KeywordsBrainDatabase Management SystemsDatabases, FactualDocumentationHumansInformation DisseminationInformation Storage and RetrievalInternationalityInternetNatural Language ProcessingNerve Tissue ProteinsNeurodegenerative DiseasesNeurosciencesPilot ProjectsResearchResearch DesignSemanticsSystems IntegrationConceptsResource Description FrameworkSemantic Web approachWeb approachData modelData setsRDF data modelStandard data modelHeterogeneous data setsData integration approachData of interestMultiple research domainsRDF SchemaDescription FrameworkDomain ontologyAdvanced queriesOracle databaseDescription languageWeb interfaceBiomedical dataData integrationSeamless integrationNeuroscience dataOntological structureResearch domainNeuroscience researchers