Mining Gene Ontology Data with AGENDA

Mining Gene Ontology Data with AGENDA

The Gene Ontology (GO) initiative is a collaborative effort that uses controlled vocabularies for annotating genetic information. We here present AGENDA (Application for mining Gene Ontology Data), a novel web-based tool for accessing the GO database. AGENDA allows the user to simultaneously retrieve and compare gene lists linked to different GO terms in diverse species using batch queries, fac...

Microarray Data Mining Using Gene Ontology

DNA microarray technology allows scientists to study the expression of thousands of genes--potentially entire genomes--simultaneously. However the large number of genes, variety of statistical methods employed and the complexity of biologic systems complicate analysis of microarray results. We have developed a web based environment that simplifies the presentation of microarray results by combi...

The Data Mining OPtimization Ontology

The Data Mining OPtimization Ontology (DMOP) has been developed to support informed decision-making at various choice points of the data mining process. The ontology can be used by data miners and deployed in ontology-driven information systems. The primary purpose for which DMOP has been developed is the automation of algorithm and model selection through semantic meta-mining that makes use of...

The Use of Ontology for Data Mining with Incomplete Data

Knowledge management has become one of the important topics in the database management field (Zhang and Zhao 2006). There have been two important research themes in knowledge management: data mining (Cunningham et al. 2006; Fayyad et al. 1996) and ontology (Green and Rosemann 2004; Kim 2002). Data mining is the process of trawling through data to find interesting patterns (Hand 1998). As such a...

OntoDM: Towards an Ontology of Data Mining