AgBase

AgBase provides curated Gene Ontology (GO) annotations, modeling tools, and genome-specific annotation resources for agriculturally important animal, plant, microbial, and parasite species.

Key Features:

• Functional Genomics Data Modeling: Includes the GOModeler tool for hypothesis testing derived from functional genomics datasets.
• Structural and Functional Annotation: Hosts structural and functional annotations comprising 590,240 GO annotations across 105,454 gene products in 64 species.
• Species-Specific Resources: Maintains species-specific annotation pages and resources for organisms such as horses, cats, dogs, cotton, rice, and soybeans.
• Comprehensive GO Annotation Files: Provides species-specific GO annotation files for 18 organisms, with annotations linked to transcripts represented on agricultural microarrays.
• Associated Databases and Genome Browsers: Hosts associated databases and genome browsers for three agricultural pathogens.

Scientific Applications:

• Gene Function Analysis: Enables investigation of gene functions and roles within biological processes, cellular components, and molecular functions using GO annotations.
• Hypothesis Testing: Supports testing of hypotheses from functional genomics data via GOModeler.
• Pathogen Research: Facilitates analysis of agricultural pathogen genomes through associated databases and genome browsers.

Methodology:

Provides curated Gene Ontology (GO) annotations, performs structural and functional genome annotation, implements GOModeler for hypothesis testing of functional genomics datasets, and hosts associated databases and genome browsers.