FANTOM - Functional Annotation of Mouse

FANTOM - Functional Annotation of Mouse annotates RIKEN full-length mouse cDNA clones by assigning functional information through transcript characterization, expression profiling, and integration with mouse genome sequences.

Key Features:

• Large-Scale Analysis: Performs analyses across the mouse genome and transcriptome for comprehensive characterization of RIKEN full-length cDNA clones.
• Sophisticated Annotation Methods: Employs two primary annotation approaches to maximize functional assignment coverage.
• One-by-One Annotation: Conducts detailed naming and characterization of individual transcripts using a top-down-style pipeline developed by the FANTOM project.
• Categorised Annotation: Groups transcripts into categories to facilitate annotation of unknown transcripts and support genomic/transcriptomic integration.
• Integration with Genome Sequences: Integrates draft mouse genome sequences with transcript annotations to enrich functional and positional information.
• Expression Profiles: Associates each annotated transcript with an expression profile indicating temporal and tissue-specific activity.

Scientific Applications:

• Gene Function Elucidation: Supports identification of gene roles by providing detailed transcript annotations linked to expression data.
• Transcriptome Characterization: Enables study of transcript diversity and expression patterns across tissues and conditions.
• Genomic Integration: Facilitates integration of transcript annotations with mouse genome sequence data to inform gene regulation and positional context.

Methodology:

Annotation is performed using a FANTOM-developed top-down pipeline for one-by-one transcript characterization and a categorised annotation approach to group and annotate unknown transcripts, combined with integration of draft mouse genome sequences and assignment of expression profiles.