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caFE Server. Siteman Cancer Center. Introduction. Annotate probes on microarrays using publicly available biomedical databases Automatically update annotations on a regular basis Web-based and API based query search Uses caCORE SDK (version 1.0.3) generated code
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caFE Server Siteman Cancer Center
Introduction • Annotate probes on microarrays using publicly available biomedical databases • Automatically update annotations on a regular basis • Web-based and API based query search • Uses caCORE SDK (version 1.0.3) generated code • Working towards caGRID compliance
Data Sources • Entrez Gene • UniGene • Gene Ontology • dbSNP • UniSTS • HomoloGene • PubMed
Annotation Interlinks Microarrays caArray Custom Entrez Gene UniGene GenBank Gene ID UniGene ClusterID Accession Number HomoloGene dbSNP PubMed Gene Ontology Orthologus genes RefSNP ID Pubmed relationship GO terms
Limitations • Initial run of PubMed data curation takes 2-3 months • APIs generated using caCORE SDK • Not optimized for complex searches • Performing searches that involves complex computations. • For example, searching for literature correlation with depth 2 or more • Meta-information of caArray is not stored