Ensembl Genomes Metazoa ID history converter

Ensembl Genomes Metazoa ID history converter converts Ensembl gene identifiers from previous Ensembl releases to current identifiers to maintain continuity across Ensembl database versions for metazoan genomic analyses.

Key Features:

• ID Conversion Across Releases: Maps historical Ensembl gene IDs to their current counterparts using Ensembl release annotations.
• Support for Multiple Species: Supports Ensembl Genomes Metazoa species, including chordates and key model organisms such as humans, mouse, zebrafish, and rat within the annotated set of 87 species.
• Integration with Ensembl Updates: Incorporates newly annotated species and enhancements from successive Ensembl genome assembly updates.
• Utilization of Enhanced Tools: Integrates Ensembl's Variant Effect Predictor (VEP) and REST API capabilities and can incorporate additional third-party data sources.
• Regulatory Data Access: Retrieves regulatory data via BioMart for analyses involving gene regulation and expression patterns.

Scientific Applications:

• Comparative Genomics: Enables consistent gene identifier mapping for cross-species and within-species comparative analyses across Ensembl releases.
• Longitudinal Studies: Maintains identifier consistency for studies tracking genetic changes over time or developmental stages.
• Data Integration: Facilitates integration of historical genomic datasets with current Ensembl data for meta-analyses and large-scale projects.
• Regulatory Research: Supports analyses of gene regulation by providing updated regulatory annotations accessible through BioMart.

Methodology:

Accesses Ensembl's database and annotations from previous genome assemblies; utilizes Ensembl's Variant Effect Predictor (VEP) and REST API; integrates BioMart queries to retrieve regulatory data.