RatMine

RatMine enables integrated storage and querying of genetic, genomic, phenotypic, and disease-related data for Rattus norvegicus to support cross-species comparative analysis with Homo sapiens and Mus musculus.

Key Features:

• Data Integration: Integrates heterogeneous genetic, genomic, phenotypic, and disease-related datasets using InterMine's extensible data model.
• Flexible Query Facility: Provides a customizable query builder that supports complex queries, genomic region searches, and built-in statistical tools.
• Export Capabilities: Exports query results in multiple formats for downstream analysis and interoperability with other tools.
• Extensibility: Employs an extensible architecture that permits addition of new data types, tools, and features.
• Web Services: Exposes a comprehensive set of web services with client libraries in five programming languages.
• Cross-Species Comparisons: Links rat data to corresponding Homo sapiens and Mus musculus records to enable comparative analyses.

Scientific Applications:

• Comparative Genomics: Supports cross-species comparison of genes and genomic regions between Rattus norvegicus, Homo sapiens, and Mus musculus.
• Translational Research and Disease Modeling: Facilitates relating rat genetic and phenotypic data to human disease-relevant information for translational studies and disease modeling.
• Genetic and Phenotypic Analysis: Enables integration and analysis of genetic, genomic, and phenotypic datasets for gene function and phenotype association studies.

Methodology:

Heterogeneous biological datasets are integrated into a unified InterMine-based data warehouse using InterMine's extensible data model.