euGenes

euGenes provides an integrated summary of eukaryotic genes and genomes to support comparative and functional genomics analyses across human, mouse, fruit fly (Drosophila melanogaster), nematode worm (Caenorhabditis elegans), yeast (Saccharomyces cerevisiae), mustard weed (Arabidopsis thaliana), and zebrafish.

Key Features:

• Species coverage: Contains genomic data for human, mouse, Drosophila melanogaster (fruit fly), Caenorhabditis elegans (nematode worm), Saccharomyces cerevisiae (yeast), Arabidopsis thaliana (mustard weed), and zebrafish.
• Curated and updated database: Meticulously curated content with automatic extraction and updates from several primary source databases.
• Gene catalog: Encompasses approximately 150,000 known, predicted, and orphan genes.
• Consistent gene nomenclature: Applies consistent gene names across species to facilitate cross-species comparisons and homology studies.
• Standardized vocabulary: Uses a standardized vocabulary describing molecular functions, cellular locations, and biological processes.
• Whole-genome maps: Integrates genomic features including chromosome locations and molecular data into comprehensive genome maps.
• Sequence retrieval and queries: Enables retrieval of sequences and supports queries involving sequence features, protein functions, and other gene attributes.
• Export formats: Produces results as detailed reports, computable tabular outputs, or bulk database forms.
• Data integration: Supports integration of summarized genomic data into broader research projects such as gene expression databases.

Scientific Applications:

• Comparative genomics: Facilitates cross-species comparison of gene content, homologies, and genomic features.
• Functional genomics: Supports annotation and analysis of molecular functions, cellular locations, and biological processes across genomes.
• Homology and association studies: Enables study of gene relationships and conserved features across multiple eukaryotic organisms.
• Integration into expression studies: Provides summarized genomic data for incorporation into gene expression and other integrative databases.

Methodology:

Automatically extracts and updates information from several primary source databases, applies curation, and integrates genomic features including chromosome locations and molecular data into whole-genome maps.