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
2005
YeastHub: a semantic web use case for integrating data in the life sciences domain
Cheung KH, Yip KY, Smith A, Deknikker R, Masiar A, Gerstein M. YeastHub: a semantic web use case for integrating data in the life sciences domain. Bioinformatics 2005, 21: i85-i96. PMID: 15961502, DOI: 10.1093/bioinformatics/bti1026.Peer-Reviewed Original ResearchConceptsResource Description FrameworkRDF Site SummaryData warehouseData integrationPrototype web-based applicationSemantic Web technologiesRDF data storesWeb-based applicationRDF formatSemantic WebWeb technologiesData storesDescription FrameworkRDF mappingRDF structureUse casesData repositorySite SummaryBiological datasetsDifferent formatsIntegration needsWarehouseDifferent resourcesQueriesTabular format