RIKEN integrated database of mammals

RIKEN Integrated Database of Mammals consolidates heterogeneous mammalian datasets from RIKEN programs and public repositories into a unified semantic framework. It integrates data from FANTOM, the ENU mutagenesis program, the RIKEN Cerebellar Development Transcriptome Database, the Bioresource Database, Ensembl, MGI, and biomedical ontologies.

Key Features:

• Semantic Web Infrastructure: Implements SciNetS/SciNeS to organize data and metadata using semantic web technologies for cross-database interoperability.
• Ontology-Based Harmonization: Applies a top-level ontology framework to standardize mammalian data records and reduce inconsistencies across integrated sources.
• Cross-Database Query Capability: Enables integrated searches across diverse mammalian genomics, transcriptomics, mutagenesis, and bioresource datasets.
• Standardized Data Formats: Provides access to integrated data in multiple standardized formats for downstream computational analyses.

Scientific Applications:

• Integrated Mammalian Genomics and Functional Analysis: Supports comprehensive cross-resource analysis of mammalian genetic, transcriptomic, and mutagenesis data.

Methodology:

The database integrates heterogeneous datasets within the SciNetS/SciNeS semantic web infrastructure, mapping records to a top-level ontology to harmonize data structures and enable interoperable, ontology-driven querying across multiple mammalian data resources.