OrthoDB
OrthoDB is a comprehensive database of orthologous protein-coding genes across multiple species, providing evolutionary and functional annotations of orthologous groups.
[{"category": "Organization", "contact_details": [{"contact_type": "email", "value": "support@orthodb.org"}, {"contact_type": "url", "value": "https://www.orthodb.org/"}], "id": "sib", "label": "Evgeny Zdobnov Lab - SIB Swiss Institute of Bioinformatics"}]
[{"category": "GraphicalInterface", "description": "Web interface for exploring OrthoDB data", "id": "orthodb.site", "is_public": true, "name": "OrthoDB Web Interface", "original_source": ["orthodb"], "product_url": "https://www.orthodb.org/", "secondary_source": ["orthodb"]}, {"category": "ProgrammingInterface", "description": "SPARQL endpoint for querying OrthoDB data", "id": "orthodb.api.sparql", "is_public": true, "name": "OrthoDB SPARQL Endpoint", "original_source": ["orthodb"], "product_url": "https://sparql.orthodb.org/", "secondary_source": ["orthodb"]}, {"category": "ProgrammingInterface", "description": "RESTful API for programmatic access to OrthoDB data", "id": "orthodb.api.rest", "is_public": true, "name": "OrthoDB API", "original_source": ["orthodb"], "product_url": "https://www.orthodb.org/api/", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "Tab-separated file with species information based on NCBI taxonomy", "format": "tsv", "id": "orthodb.species", "name": "OrthoDB Species Data", "original_source": ["orthodb"], "product_file_size": 644375, "product_url": "https://data.orthodb.org/current/download/odb12v1_species.tab.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "Tab-separated file with information about orthologous groups", "format": "tsv", "id": "orthodb.ogs", "name": "OrthoDB Orthologous Groups", "original_source": ["orthodb"], "product_file_size": 145213387, "product_url": "https://data.orthodb.org/current/download/odb12v1_OGs.tab.gz", "secondary_source": ["orthodb"]}, {"category": "MappingProduct", "compression": "gzip", "description": "Tab-separated file mapping orthologous groups to genes", "format": "tsv", "id": "orthodb.og2genes", "name": "OrthoDB OG to Genes Mapping", "original_source": ["orthodb"], "product_file_size": 4909850611, "product_url": "https://data.orthodb.org/current/download/odb12v1_OG2genes.tab.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "Tab-separated file with gene information and annotations", "format": "tsv", "id": "orthodb.genes", "name": "OrthoDB Genes Data", "original_source": ["orthodb"], "product_file_size": 4785964374, "product_url": "https://data.orthodb.org/current/download/odb12v1_genes.tab.gz", "secondary_source": ["orthodb"]}, {"category": "MappingProduct", "compression": "gzip", "description": "Tab-separated file with gene cross-references to other databases", "format": "tsv", "id": "orthodb.gene_xrefs", "name": "OrthoDB Gene Cross-references", "original_source": ["orthodb"], "product_file_size": 4692134033, "product_url": "https://data.orthodb.org/current/download/odb12v1_gene_xrefs.tab.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "Tab-separated file with orthologous group functional annotations including GO, COG, and InterPro", "format": "tsv", "id": "orthodb.og_xrefs", "name": "OrthoDB OG Functional Annotations", "original_source": ["orthodb"], "product_file_size": 349253826, "product_url": "https://data.orthodb.org/current/download/odb12v1_OG_xrefs.tab.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "FASTA-formatted amino acid sequences for all genes", "format": "fasta", "id": "orthodb.aa_fasta", "name": "OrthoDB Protein Sequences", "original_source": ["orthodb"], "product_file_size": 38928290988, "product_url": "https://data.orthodb.org/current/download/odb12v1_aa_fasta.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "FASTA-formatted coding sequences for all genes", "format": "fasta", "id": "orthodb.cds_fasta", "name": "OrthoDB CDS Sequences", "original_source": ["orthodb"], "product_file_size": 57560209301, "product_url": "https://data.orthodb.org/current/download/odb12v1_cds_fasta.gz", "secondary_source": ["orthodb"]}]
{"activity_status": "active", "category": "DataSource", "contacts": [{"category": "Organization", "contact_details": [{"contact_type": "email", "value": "support@orthodb.org"}, {"contact_type": "url", "value": "https://www.orthodb.org/"}], "id": "sib", "label": "Evgeny Zdobnov Lab - SIB Swiss Institute of Bioinformatics"}], "description": "OrthoDB is a comprehensive database of orthologous protein-coding genes across multiple species, providing evolutionary and functional annotations of orthologous groups.", "domains": ["biological systems", "organisms"], "homepage_url": "https://www.orthodb.org/", "id": "orthodb", "layout": "resource_detail", "license": {"id": "https://creativecommons.org/licenses/by/4.0/", "label": "CC-BY-4.0", "logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png"}, "name": "OrthoDB", "products": [{"category": "GraphicalInterface", "description": "Web interface for exploring OrthoDB data", "id": "orthodb.site", "is_public": true, "name": "OrthoDB Web Interface", "original_source": ["orthodb"], "product_url": "https://www.orthodb.org/", "secondary_source": ["orthodb"]}, {"category": "ProgrammingInterface", "description": "SPARQL endpoint for querying OrthoDB data", "id": "orthodb.api.sparql", "is_public": true, "name": "OrthoDB SPARQL Endpoint", "original_source": ["orthodb"], "product_url": "https://sparql.orthodb.org/", "secondary_source": ["orthodb"]}, {"category": "ProgrammingInterface", "description": "RESTful API for programmatic access to OrthoDB data", "id": "orthodb.api.rest", "is_public": true, "name": "OrthoDB API", "original_source": ["orthodb"], "product_url": "https://www.orthodb.org/api/", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "Tab-separated file with species information based on NCBI taxonomy", "format": "tsv", "id": "orthodb.species", "name": "OrthoDB Species Data", "original_source": ["orthodb"], "product_file_size": 644375, "product_url": "https://data.orthodb.org/current/download/odb12v1_species.tab.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "Tab-separated file with information about orthologous groups", "format": "tsv", "id": "orthodb.ogs", "name": "OrthoDB Orthologous Groups", "original_source": ["orthodb"], "product_file_size": 145213387, "product_url": "https://data.orthodb.org/current/download/odb12v1_OGs.tab.gz", "secondary_source": ["orthodb"]}, {"category": "MappingProduct", "compression": "gzip", "description": "Tab-separated file mapping orthologous groups to genes", "format": "tsv", "id": "orthodb.og2genes", "name": "OrthoDB OG to Genes Mapping", "original_source": ["orthodb"], "product_file_size": 4909850611, "product_url": "https://data.orthodb.org/current/download/odb12v1_OG2genes.tab.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "Tab-separated file with gene information and annotations", "format": "tsv", "id": "orthodb.genes", "name": "OrthoDB Genes Data", "original_source": ["orthodb"], "product_file_size": 4785964374, "product_url": "https://data.orthodb.org/current/download/odb12v1_genes.tab.gz", "secondary_source": ["orthodb"]}, {"category": "MappingProduct", "compression": "gzip", "description": "Tab-separated file with gene cross-references to other databases", "format": "tsv", "id": "orthodb.gene_xrefs", "name": "OrthoDB Gene Cross-references", "original_source": ["orthodb"], "product_file_size": 4692134033, "product_url": "https://data.orthodb.org/current/download/odb12v1_gene_xrefs.tab.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "Tab-separated file with orthologous group functional annotations including GO, COG, and InterPro", "format": "tsv", "id": "orthodb.og_xrefs", "name": "OrthoDB OG Functional Annotations", "original_source": ["orthodb"], "product_file_size": 349253826, "product_url": "https://data.orthodb.org/current/download/odb12v1_OG_xrefs.tab.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "FASTA-formatted amino acid sequences for all genes", "format": "fasta", "id": "orthodb.aa_fasta", "name": "OrthoDB Protein Sequences", "original_source": ["orthodb"], "product_file_size": 38928290988, "product_url": "https://data.orthodb.org/current/download/odb12v1_aa_fasta.gz", "secondary_source": ["orthodb"]}, {"category": "Product", "compression": "gzip", "description": "FASTA-formatted coding sequences for all genes", "format": "fasta", "id": "orthodb.cds_fasta", "name": "OrthoDB CDS Sequences", "original_source": ["orthodb"], "product_file_size": 57560209301, "product_url": "https://data.orthodb.org/current/download/odb12v1_cds_fasta.gz", "secondary_source": ["orthodb"]}], "publications": [{"authors": ["Kriventseva EV", "Kuznetsov D", "Tegenfeldt F", "Manni M", "Dias R", "Sim\u00e3o FA", "Zdobnov EM"], "doi": "doi:10.1093/nar/gky1053", "id": "doi:10.1093/nar/gky1053", "title": "OrthoDB v10 - sampling the diversity of animal, plant, fungal, protist, bacterial and viral genomes for evolutionary and functional annotations of orthologs", "year": "2019"}, {"authors": ["Zdobnov EM", "Tegenfeldt F", "Kuznetsov D", "Waterhouse RM", "Sim\u00e3o FA", "Ioannidis P", "Seppey M", "Loetscher A", "Kriventseva EV"], "doi": "doi:10.1093/nar/gkw1119", "id": "doi:10.1093/nar/gkw1119", "preferred": true, "title": "OrthoDB v9.1 - cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs", "year": "2017"}], "repository": "https://github.com/zdobnov-lab/orthodb"}