LegumeMine

LegumeMine integrates and enables analysis of genomic, transcriptomic, and proteomic data for multiple legume species including string bean, soybean, peanut, and barrel medic using the InterMine data warehouse framework.

Key Features:

• Data Integration: Uses InterMine's extensible data model to aggregate heterogeneous genomic, transcriptomic, proteomic, and other biological datasets for legume species into a unified database.
• Customizable Query Facility: Provides a query builder to perform detailed searches across the integrated dataset and retrieve tailored results.
• Genomic Region Search: Allows exploration of specific genomic segments to examine gene locations, expression patterns, and genetic variation within legume genomes.
• Statistical Analysis Tools: Includes a library of widgets offering statistical analyses for descriptive and inferential examination of biological data.
• Data Export Options: Enables export of query and analysis results in numerous commonly used file formats for downstream use.
• Extensibility and Customization: Implements a fully extensible framework that supports addition of new tools and functionalities.
• Web Services and Client Libraries: Exposes web services and provides client libraries in five commonly used programming languages for programmatic access and integration.

Scientific Applications:

• Comparative Genomics: Supports cross-species comparisons to identify conserved genes and pathways among legumes.
• Genetic Diversity and Evolution: Facilitates analyses of genetic diversity and evolutionary relationships across legume species.
• Gene Function and Expression Analysis: Enables investigation of gene function and expression patterns using integrated genomic and transcriptomic data.
• Crop Improvement and Stress Response: Assists in identifying candidate genes and pathways relevant to legume development and responses to stress for crop improvement studies.

Methodology:

Aggregates diverse biological datasets into a cohesive InterMine-based database and provides analytical tools and web services to query and analyze large-scale legume data.