GrapeMine

GrapeMine integrates heterogeneous grapevine biological datasets using the InterMine framework to provide a searchable database for genomic, phenotypic, and environmental data analysis.

Key Features:

• Data Integration: Leverages the extensible data model of InterMine to consolidate genomic, phenotypic, and environmental grapevine datasets.
• Customizable Query Facility: Provides a flexible query builder for constructing complex searches across integrated datasets.
• Genomic Region Search: Supports genomic region searches to investigate specific segments of the grapevine genome for gene function, expression patterns, and genetic variation.
• Statistical Analysis Tools: Includes a library of widgets that perform statistical analyses on query results.
• Data Export Options: Exports query results in multiple commonly used file formats for downstream analysis.
• Extensibility and Customization: Offers an extensible framework allowing developers to add new data types, tools, and analyses.
• Web Services and Programming Support: Exposes web services and provides client libraries in five programming languages for programmatic access.

Scientific Applications:

• Genomic Research: Facilitates gene discovery, functional genomics, and comparative genomics in grapevine.
• Breeding Programs: Supports marker-assisted selection and genomic prediction for grapevine improvement.
• Phenotypic Studies: Integrates phenotypic data with genetic information to understand trait development and environmental interactions.

Methodology:

Built on the InterMine framework, GrapeMine uses InterMine's extensible data model and web services to integrate and manage data from multiple sources.