MGnify
MGnify is an active aggregator and analysis platform for microbiome and metagenomic data, providing tools for submission, analysis, visualization, and discovery of microbiome datasets from diverse biomes and environments. It is operated by EMBL-EBI and is an ELIXIR Core Data Resource.
[]
[{"category": "GraphicalInterface", "description": "Web portal for searching, browsing, and analyzing microbiome and metagenomic datasets, including studies, analyses, genomes, and biomes.", "format": "http", "id": "mgnify.portal", "name": "MGnify Web Portal", "product_url": "https://www.ebi.ac.uk/metagenomics"}, {"category": "ProgrammingInterface", "description": "REST API for programmatic access to MGnify data, including studies, analyses, genomes, and metadata.", "format": "http", "id": "mgnify.api", "name": "MGnify REST API", "product_url": "https://www.ebi.ac.uk/metagenomics/api"}, {"category": "Product", "description": "FTP archive with current and archived release files, including sequences, annotations, and genome catalogues.", "format": "http", "id": "mgnify.ftp", "name": "MGnify FTP Archive", "product_url": "ftp://ftp.ebi.ac.uk/pub/databases/metagenomics", "warnings": ["File was not able to be retrieved when checked on 2025-12-04_ Error connecting to URL_ No connection adapters were found for 'ftp_//ftp.ebi.ac.uk/pub/databases/metagenomics'", "File was not able to be retrieved when checked on 2025-12-04_ FTP error_ [Errno 104] Connection reset by peer", "File was not able to be retrieved when checked on 2025-12-04_ FTP error_ [Errno 104] Connection reset by peer"]}, {"category": "Product", "description": "Biome-specific microbial genome catalogues, including marine, human gut, and other environments.", "format": "http", "id": "mgnify.genomes", "name": "MGnify Genomes Catalogue", "product_url": "https://www.ebi.ac.uk/metagenomics/browse"}, {"category": "Product", "description": "Protein database derived from metagenomic analyses, including protein families and annotations.", "format": "http", "id": "mgnify.proteins", "name": "MGnify Proteins Database", "product_url": "https://www.ebi.ac.uk/metagenomics/proteins"}, {"category": "DocumentationProduct", "description": "Documentation and help resources for MGnify, including user guides and API documentation.", "format": "http", "id": "mgnify.docs", "name": "MGnify Documentation", "product_url": "https://www.ebi.ac.uk/metagenomics/help"}, {"category": "DocumentationProduct", "description": "On-demand and live training resources for MGnify users, including webinars and tutorials.", "format": "http", "id": "mgnify.training", "name": "MGnify Training", "product_url": "https://www.ebi.ac.uk/training/online/courses/mgnify-quick-tour"}, {"category": "GraphicalInterface", "description": "Web portal for searching and browsing ncRNA sequences, structures, and annotations", "format": "http", "id": "rnacentral.portal", "name": "RNAcentral Portal", "original_source": ["5srrnadb", "crd", "dictybase", "ena", "ensembl", "evlncrnas", "expressionatlas", "flybase", "genecards", "greengenes", "gtrnadb", "hgnc", "intact", "lncbase", "lncbook", "lncipedia", "lncrnadb", "malacards", "mgnify", "mirbase", "mirgenedb", "modomics", "noncode", "pdbe", "pirbase", "plncdb", "pombase", "rdp", "rediportal", "rfam", "rgd", "ribocentre", "ribovision", "sgd", "silva", "snodb", "snopy", "snornadatabase", "srpdb", "tair", "tarbase", "tmrnawebsite", "zfin", "zwd", "rnacentral"], "product_url": "https://rnacentral.org/"}, {"category": "ProgrammingInterface", "description": "REST API for programmatic access to RNAcentral data", "format": "http", "id": "rnacentral.api", "name": "RNAcentral REST API", "original_source": ["5srrnadb", "crd", "dictybase", "ena", "ensembl", "evlncrnas", "expressionatlas", "flybase", "genecards", "greengenes", "gtrnadb", "hgnc", "intact", "lncbase", "lncbook", "lncipedia", "lncrnadb", "malacards", "mgnify", "mirbase", "mirgenedb", "modomics", "noncode", "pdbe", "pirbase", "plncdb", "pombase", "rdp", "rediportal", "rfam", "rgd", "ribocentre", "ribovision", "sgd", "silva", "snodb", "snopy", "snornadatabase", "srpdb", "tair", "tarbase", "tmrnawebsite", "zfin", "zwd", "rnacentral"], "product_url": "https://rnacentral.org/api"}, {"category": "Product", "description": "FTP archive with current and archived release files (sequences and annotations)", "format": "http", "id": "rnacentral.ftp", "name": "RNAcentral FTP Archive", "original_source": ["5srrnadb", "crd", "dictybase", "ena", "ensembl", "evlncrnas", "expressionatlas", "flybase", "genecards", "greengenes", "gtrnadb", "hgnc", "intact", "lncbase", "lncbook", "lncipedia", "lncrnadb", "malacards", "mgnify", "mirbase", "mirgenedb", "modomics", "noncode", "pdbe", "pirbase", "plncdb", "pombase", "rdp", "rediportal", "rfam", "rgd", "ribocentre", "ribovision", "sgd", "silva", "snodb", "snopy", "snornadatabase", "srpdb", "tair", "tarbase", "tmrnawebsite", "zfin", "zwd", "rnacentral"], "product_url": "https://ftp.ebi.ac.uk/pub/databases/RNAcentral"}, {"category": "DataModelProduct", "description": "Public PostgreSQL database for direct SQL access to RNAcentral data", "format": "postgres", "id": "rnacentral.public-db", "name": "RNAcentral Public Postgres Database", "original_source": ["5srrnadb", "crd", "dictybase", "ena", "ensembl", "evlncrnas", "expressionatlas", "flybase", "genecards", "greengenes", "gtrnadb", "hgnc", "intact", "lncbase", "lncbook", "lncipedia", "lncrnadb", "malacards", "mgnify", "mirbase", "mirgenedb", "modomics", "noncode", "pdbe", "pirbase", "plncdb", "pombase", "rdp", "rediportal", "rfam", "rgd", "ribocentre", "ribovision", "sgd", "silva", "snodb", "snopy", "snornadatabase", "srpdb", "tair", "tarbase", "tmrnawebsite", "zfin", "zwd", "rnacentral"], "product_url": "https://rnacentral.org/help/public-database"}]
{"activity_status": "active", "category": "Aggregator", "creation_date": "2025-09-09T00:00:00Z", "description": "MGnify is an active aggregator and analysis platform for microbiome and metagenomic data, providing tools for submission, analysis, visualization, and discovery of microbiome datasets from diverse biomes and environments. It is operated by EMBL-EBI and is an ELIXIR Core Data Resource.", "domains": ["biological systems", "genomics", "environment", "clinical"], "id": "mgnify", "last_modified_date": "2025-10-10T00:00:00Z", "layout": "resource_detail", "name": "MGnify", "products": [{"category": "GraphicalInterface", "description": "Web portal for searching, browsing, and analyzing microbiome and metagenomic datasets, including studies, analyses, genomes, and biomes.", "format": "http", "id": "mgnify.portal", "name": "MGnify Web Portal", "product_url": "https://www.ebi.ac.uk/metagenomics"}, {"category": "ProgrammingInterface", "description": "REST API for programmatic access to MGnify data, including studies, analyses, genomes, and metadata.", "format": "http", "id": "mgnify.api", "name": "MGnify REST API", "product_url": "https://www.ebi.ac.uk/metagenomics/api"}, {"category": "Product", "description": "FTP archive with current and archived release files, including sequences, annotations, and genome catalogues.", "format": "http", "id": "mgnify.ftp", "name": "MGnify FTP Archive", "product_url": "ftp://ftp.ebi.ac.uk/pub/databases/metagenomics", "warnings": ["File was not able to be retrieved when checked on 2025-12-04_ Error connecting to URL_ No connection adapters were found for 'ftp_//ftp.ebi.ac.uk/pub/databases/metagenomics'", "File was not able to be retrieved when checked on 2025-12-04_ FTP error_ [Errno 104] Connection reset by peer", "File was not able to be retrieved when checked on 2025-12-04_ FTP error_ [Errno 104] Connection reset by peer"]}, {"category": "Product", "description": "Biome-specific microbial genome catalogues, including marine, human gut, and other environments.", "format": "http", "id": "mgnify.genomes", "name": "MGnify Genomes Catalogue", "product_url": "https://www.ebi.ac.uk/metagenomics/browse"}, {"category": "Product", "description": "Protein database derived from metagenomic analyses, including protein families and annotations.", "format": "http", "id": "mgnify.proteins", "name": "MGnify Proteins Database", "product_url": "https://www.ebi.ac.uk/metagenomics/proteins"}, {"category": "DocumentationProduct", "description": "Documentation and help resources for MGnify, including user guides and API documentation.", "format": "http", "id": "mgnify.docs", "name": "MGnify Documentation", "product_url": "https://www.ebi.ac.uk/metagenomics/help"}, {"category": "DocumentationProduct", "description": "On-demand and live training resources for MGnify users, including webinars and tutorials.", "format": "http", "id": "mgnify.training", "name": "MGnify Training", "product_url": "https://www.ebi.ac.uk/training/online/courses/mgnify-quick-tour"}, {"category": "GraphicalInterface", "description": "Web portal for searching and browsing ncRNA sequences, structures, and annotations", "format": "http", "id": "rnacentral.portal", "name": "RNAcentral Portal", "original_source": ["5srrnadb", "crd", "dictybase", "ena", "ensembl", "evlncrnas", "expressionatlas", "flybase", "genecards", "greengenes", "gtrnadb", "hgnc", "intact", "lncbase", "lncbook", "lncipedia", "lncrnadb", "malacards", "mgnify", "mirbase", "mirgenedb", "modomics", "noncode", "pdbe", "pirbase", "plncdb", "pombase", "rdp", "rediportal", "rfam", "rgd", "ribocentre", "ribovision", "sgd", "silva", "snodb", "snopy", "snornadatabase", "srpdb", "tair", "tarbase", "tmrnawebsite", "zfin", "zwd", "rnacentral"], "product_url": "https://rnacentral.org/"}, {"category": "ProgrammingInterface", "description": "REST API for programmatic access to RNAcentral data", "format": "http", "id": "rnacentral.api", "name": "RNAcentral REST API", "original_source": ["5srrnadb", "crd", "dictybase", "ena", "ensembl", "evlncrnas", "expressionatlas", "flybase", "genecards", "greengenes", "gtrnadb", "hgnc", "intact", "lncbase", "lncbook", "lncipedia", "lncrnadb", "malacards", "mgnify", "mirbase", "mirgenedb", "modomics", "noncode", "pdbe", "pirbase", "plncdb", "pombase", "rdp", "rediportal", "rfam", "rgd", "ribocentre", "ribovision", "sgd", "silva", "snodb", "snopy", "snornadatabase", "srpdb", "tair", "tarbase", "tmrnawebsite", "zfin", "zwd", "rnacentral"], "product_url": "https://rnacentral.org/api"}, {"category": "Product", "description": "FTP archive with current and archived release files (sequences and annotations)", "format": "http", "id": "rnacentral.ftp", "name": "RNAcentral FTP Archive", "original_source": ["5srrnadb", "crd", "dictybase", "ena", "ensembl", "evlncrnas", "expressionatlas", "flybase", "genecards", "greengenes", "gtrnadb", "hgnc", "intact", "lncbase", "lncbook", "lncipedia", "lncrnadb", "malacards", "mgnify", "mirbase", "mirgenedb", "modomics", "noncode", "pdbe", "pirbase", "plncdb", "pombase", "rdp", "rediportal", "rfam", "rgd", "ribocentre", "ribovision", "sgd", "silva", "snodb", "snopy", "snornadatabase", "srpdb", "tair", "tarbase", "tmrnawebsite", "zfin", "zwd", "rnacentral"], "product_url": "https://ftp.ebi.ac.uk/pub/databases/RNAcentral"}, {"category": "DataModelProduct", "description": "Public PostgreSQL database for direct SQL access to RNAcentral data", "format": "postgres", "id": "rnacentral.public-db", "name": "RNAcentral Public Postgres Database", "original_source": ["5srrnadb", "crd", "dictybase", "ena", "ensembl", "evlncrnas", "expressionatlas", "flybase", "genecards", "greengenes", "gtrnadb", "hgnc", "intact", "lncbase", "lncbook", "lncipedia", "lncrnadb", "malacards", "mgnify", "mirbase", "mirgenedb", "modomics", "noncode", "pdbe", "pirbase", "plncdb", "pombase", "rdp", "rediportal", "rfam", "rgd", "ribocentre", "ribovision", "sgd", "silva", "snodb", "snopy", "snornadatabase", "srpdb", "tair", "tarbase", "tmrnawebsite", "zfin", "zwd", "rnacentral"], "product_url": "https://rnacentral.org/help/public-database"}], "publications": [{"authors": ["Richardson LJ", "Allen B", "Baldi G", "Beracochea M", "Bileschi M", "Burdett T", "Burgin J", "Caballero-P\u00e9rez J", "Cochrane G", "Colwell L", "Curtis T", "Escobar-Zepeda A", "Gurbich T", "Kale V", "Korobeynikov A", "Raj S", "Rogers AB", "Sakharova E", "Sanchez S", "Wilkinson D", "Finn RD"], "id": "https://doi.org/10.1093/nar/gkac1080", "journal": "Nucleic Acids Research", "preferred": true, "title": "MGnify: the microbiome sequence data analysis resource in 2023", "year": "2023"}], "taxon": ["NCBITaxon:9606"]}