GEE: An Informatics Tool for Gene Expression Data Explore.
- Author:
Soo Youn LEE
1
;
Chan Hee PARK
;
Jun Hee YOON
;
Sunmin YUN
;
Ju Han KIM
Author Information
- Publication Type:Original Article
- Keywords: Microarray Analysis; Search Engine; RNA Sequence; Mobile Applications
- MeSH: Base Sequence; Epigenomics; Gene Expression*; Informatics*; Information Storage and Retrieval; Microarray Analysis; Mobile Applications; Research Design; Search Engine
- From:Healthcare Informatics Research 2016;22(2):81-88
- CountryRepublic of Korea
- Language:English
- Abstract: OBJECTIVES: Major public high-throughput functional genomic data repositories, including the Gene Expression Omnibus (GEO) and ArrayExpress have rapidly expanded. As a result, a large number of diverse high-throughput functional genomic data retrieval systems have been developed. However, high-throughput functional genomic data retrieval remains challenging. METHODS: We developed Gene Expression data Explore (GEE), the first powerful, flexible web and mobile search application for searching whole-genome epigenetic data and microarray data in public databases, such as GEO and ArrayExpress. RESULTS: GEE provides an elaborate, convenient interface of query generation competences not available via various high-throughput functional genomic data retrieval systems, including GEO, ArrayExpress, and Atlas. In particular, GEE provides a suitable query generator using eVOC, the Experimental Factor Ontology (EFO), which is well represented with a variety of high-throughput functional genomic data experimental conditions. In addition, GEE provides an experimental design query constructor (EDQC), which provides elaborate retrieval filter conditions when the user designs real experiments. CONCLUSIONS: The web version of GEE is available at http://www.snubi.org/software/gee, and its app version is available from the Apple App Store.
