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{ "count": 2771, "next": "?page=2", "previous": null, "list": [ { "name": "DataDiscovery", "description": "DataDiscovery aims at providing researchers a simple and fast access to relevant biological data using specific keywords and easy to use filters.\n\nThis tool is expected to be easily customizable for specific filters, environments, or data schemas. 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M., Bader, K. C., Letellier, T., Kimmel, E., Flores, R.-G., Pommier, C., Kerhornou, A., Walts, B., Nussbaumer, T., Grabmuller, C., Chen, J., Colmsee, C., Beier, S., Mascher, M., Schmutzer, T., Arend, D., Thanki, A., Ramirez-Gonzalez, R., Ayling, M., Ayling, S., Caccamo, M., Mayer, K. F. X., Scholz, U., Steinbach, D., Quesneville, H., Kersey, P. (2016). TransPLANT resources for triticeae genomic data. Plant Genome, 9 (1), 13 p.", "metadata": null }, { "doi": "10.1038/hortres.2016.56", "pmid": null, "pmcid": null, "type": [], "version": null, "note": "2-\tAdam-Blondon, A.-F., Alaux, M., Pommier, C., Cantu, D., Cheng, Z.-M., Cramer, G. R., Davies, C., Delrot, S., Deluc, L., di Gaspero, G., Grimplet, J., Fennell, A., Londo, J. P., Kersey, P., Mattivi, F., Naithani, S., Neveu, P., Nikolski, M., Pezzotti, M., Reisch, B. I., Topfer, R., Vivier, M., Ware, D., Quesneville, H. (2016). Towards an open grapevine information system. Horticulture Research, 3, 8 p. , DOI : 10.1038/hortres.2016.56", "metadata": null }, { "doi": "10.1186/s13059-018-1491-4", "pmid": null, "pmcid": null, "type": [], "version": null, "note": "3-\tAlaux M, Rogers J, Letellier T, Flores R, Alfama F, Pommier C, Mohellibi N, Durand S, Kimmel E, Michotey C, Guerche C, Loaec M, Lainé M, Steinbach D, Choulet F, Rimbert H, Leroy P, Guilhot N, Salse J, Feuillet C, International Wheat Genome Sequencing Consortium, Paux E, Eversole K, Adam-Blondon A-F, Quesneville H (2018) Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data. Genome Biology, 19:111.", "metadata": null } ], "credit": [ { "name": "URGI", "email": "urgi-contact@inrae.fr", "url": null, "orcidid": null, "gridid": null, "rorid": "04etk8241", "fundrefid": null, "typeEntity": null, "typeRole": [ "Developer", "Provider", "Maintainer", "Support" ], "note": "How to cite: https://urgi.versailles.inrae.fr/Platform/How-to-cite" } ], "owner": "nfrancillon", "additionDate": "2020-01-21T16:40:38Z", "lastUpdate": "2026-10-12T15:38:55.887446Z", "editPermission": { "type": "group", "authors": [ "urgi-contact", "cpommier", "cmichotey", "erlefloch", "raphael.flores" ] }, "validated": 1, "homepage_status": 0, "elixir_badge": 0, "confidence_flag": null }, { "name": "RARe", "description": "RARe, the French Network of Biological Resource Centers for Research in Biology, Agronomy, and the Environment (https://www.agrobrc-rare.org/) is a research infrastructure included in the national roadmap. It brings together five BRC networks that preserve genetic, genomic, and biological resources collected and characterized through research on domestic animals, model or cultivated plants, wild species related to domestic animals, forest trees, microorganisms of agronomic or agri-food interest, and environmental microorganisms and organisms.\nThe goal of the RARe portal is to facilitate the discovery of and access to these data.\nIt is based on the DataDiscovery tool, which aims to provide researchers with quick and easy access to relevant biological data using specific keywords and filters. This generic tool is easily customizable for specific filters, environments, or data schemas.", "homepage": "https://urgi.versailles.inrae.fr/rare/", "biotoolsID": "RARe", "biotoolsCURIE": "biotools:RARe", "version": [], "otherID": [], "relation": [ { "biotoolsID": "DataDiscovery", "type": "uses" } ], "function": [ { "operation": [ { "uri": "http://edamontology.org/operation_0337", "term": "Visualisation" }, { "uri": "http://edamontology.org/operation_3908", "term": "Information retrieval" }, { "uri": "http://edamontology.org/operation_3625", "term": "Relation extraction" }, { "uri": "http://edamontology.org/operation_0224", "term": "Query and retrieval" }, { "uri": "http://edamontology.org/operation_0227", "term": "Indexing" } ], "input": [ { "data": { "uri": "http://edamontology.org/data_0968", "term": "Keyword" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_2353", "term": "Ontology data" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_2337", "term": "Resource metadata" }, "format": [] } ], "output": [ { "data": { "uri": "http://edamontology.org/data_2080", "term": "Database search results" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_2093", "term": "Data reference" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_0842", "term": "Identifier" }, "format": [] } ], "note": null, "cmd": null } ], "toolType": [ "Web application", "Database portal", "Web API", "Web service" ], "topic": [ { "uri": "http://edamontology.org/topic_0780", "term": "Plant biology" }, { "uri": "http://edamontology.org/topic_0610", "term": "Ecology" }, { "uri": "http://edamontology.org/topic_0091", "term": "Bioinformatics" }, { "uri": "http://edamontology.org/topic_3810", "term": "Agricultural science" } ], "operatingSystem": [ "Linux" ], "language": [ "Bash", "JavaScript", "Java" ], "license": "BSD-3-Clause", "collectionID": [ "elixir-fr-sdp-2019", "URGI" ], "maturity": "Mature", "cost": "Free of charge", "accessibility": "Open access", "elixirPlatform": [ "Tools", "Data", "Interoperability" ], "elixirNode": [ "France" ], "elixirCommunity": [ "Plant Sciences" ], "link": [ { "url": "https://www.agrobrc-rare.org/agrobrc-rare_eng/", "type": [ "Other" ], "note": "AgroBRC-RARe website" }, { "url": "https://forgemia.inra.fr/urgi-is/data-discovery", "type": [ "Repository" ], "note": null } ], "download": [], "documentation": [ { "url": "https://urgi.versailles.inrae.fr/rare/about", "type": [ "General" ], "note": null }, { "url": "https://urgi.versailles.inrae.fr/rare/join", "type": [ "Contributions policy" ], "note": null }, { "url": "https://urgi.versailles.inrae.fr/rare/legal", "type": [ "Terms of use" ], "note": null }, { "url": "https://urgi.versailles.inrae.fr/rare/help", "type": [ "User manual" ], "note": null }, { "url": "https://forgemia.inra.fr/urgi-is/data-discovery/blob/master/README.md#contribute", "type": [ "Contributions policy" ], "note": null }, { "url": "https://forgemia.inra.fr/urgi-is/data-discovery/blob/master/README.md#setup", "type": [ "Installation instructions" ], "note": null }, { "url": "https://urgi.versailles.inrae.fr/Data-Services/Data-Access/Federations", "type": [ "General" ], "note": null } ], "publication": [], "credit": [ { "name": "URGI", "email": "urgi-contact@inrae.fr", "url": null, "orcidid": null, "gridid": null, "rorid": "04etk8241", "fundrefid": null, "typeEntity": null, "typeRole": [ "Developer", "Provider", "Maintainer", "Support" ], "note": "How to cite: https://urgi.versailles.inrae.fr/Platform/How-to-cite" } ], "owner": "nfrancillon", "additionDate": "2020-02-13T15:34:59Z", "lastUpdate": "2026-10-12T15:38:25.930959Z", "editPermission": { "type": "group", "authors": [ "cpommier", "urgi-contact", "cmichotey", "raphael.flores" ] }, "validated": 1, "homepage_status": 0, "elixir_badge": 0, "confidence_flag": null }, { "name": "WheatIS", "description": "As part of the Wheat Initiative (https://www.wheatinitiative.org/) the WheatIS working group (http://www.wheatis.org/) is developing an international wheat information system to support the wheat research community. “WheatIS Data Discovery” is the web portal that allows users to search for and access wheat data in international databases.\nIt is based on the DataDiscovery tool, which aims to provide researchers with quick and easy access to relevant biological data using specific keywords and filters. This generic tool is easily customizable for specific filters, environments, or data schemas.", "homepage": "https://urgi.versailles.inrae.fr/wheatis/", "biotoolsID": "WheatIS", "biotoolsCURIE": "biotools:WheatIS", "version": [], "otherID": [], "relation": [ { "biotoolsID": "gnpis", "type": "uses" }, { "biotoolsID": "DataDiscovery", "type": "uses" } ], "function": [ { "operation": [ { "uri": "http://edamontology.org/operation_3625", "term": "Relation extraction" }, { "uri": "http://edamontology.org/operation_3908", "term": "Information retrieval" }, { "uri": "http://edamontology.org/operation_0224", "term": "Query and retrieval" }, { "uri": "http://edamontology.org/operation_0227", "term": "Indexing" }, { "uri": "http://edamontology.org/operation_0337", "term": "Visualisation" } ], "input": [ { "data": { "uri": "http://edamontology.org/data_2353", "term": "Ontology data" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_0968", "term": "Keyword" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_2337", "term": "Resource metadata" }, "format": [] } ], "output": [ { "data": { "uri": "http://edamontology.org/data_2080", "term": "Database search results" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_2093", "term": "Data reference" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_0842", "term": "Identifier" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_1188", "term": "DOI" }, "format": [] } ], "note": null, "cmd": null } ], "toolType": [ "Web application", "Web service", "Database portal", "Web API" ], "topic": [ { "uri": "http://edamontology.org/topic_0780", "term": "Plant biology" }, { "uri": "http://edamontology.org/topic_0610", "term": "Ecology" }, { "uri": "http://edamontology.org/topic_0091", "term": "Bioinformatics" }, { "uri": "http://edamontology.org/topic_3810", "term": "Agricultural science" }, { "uri": "http://edamontology.org/topic_0625", "term": "Genotype and phenotype" } ], "operatingSystem": [ "Linux" ], "language": [ "JavaScript", "Bash", "Java" ], "license": "BSD-3-Clause", "collectionID": [ "elixir-fr-sdp-2019", "URGI" ], "maturity": "Mature", "cost": "Free of charge", "accessibility": "Open access", "elixirPlatform": [ "Tools", "Data", "Interoperability" ], "elixirNode": [ "France" ], "elixirCommunity": [ "Plant Sciences" ], "link": [ { "url": "http://www.wheatis.org/", "type": [ "Other" ], "note": "WheatIS website" }, { "url": "https://forgemia.inra.fr/urgi-is/data-discovery", "type": [ "Repository" ], "note": null } ], "download": [], "documentation": [ { "url": "https://urgi.versailles.inra.fr/wheatis/about", "type": [ "General" ], "note": null }, { "url": "https://urgi.versailles.inra.fr/wheatis/join", "type": [ "Contributions policy" ], "note": null }, { "url": "https://urgi.versailles.inra.fr/wheatis/legal", "type": [ "Terms of use" ], "note": null }, { "url": "https://urgi.versailles.inra.fr/wheatis/help", "type": [ "User manual" ], "note": null }, { "url": "https://forgemia.inra.fr/urgi-is/data-discovery/blob/master/README.md#contribute", "type": [ "Contributions policy" ], "note": null }, { "url": "https://forgemia.inra.fr/urgi-is/data-discovery/blob/master/README.md#setup", "type": [ "Installation instructions" ], "note": null }, { "url": "https://urgi.versailles.inrae.fr/Data-Services/Data-Access/Federations", "type": [ "General" ], "note": null } ], "publication": [ { "doi": "10.1186/s13059-018-1491-4", "pmid": null, "pmcid": null, "type": [ "Primary" ], "version": null, "note": "Alaux M, Rogers J, Letellier T, Flores R, Alfama F, Pommier C, Mohellibi N, Durand S, Kimmel E, Michotey C, Guerche C, Loaec M, Lainé M, Steinbach D, Choulet F, Rimbert H, Leroy P, Guilhot N, Salse J, Feuillet C, International Wheat Genome Sequencing Consortium, Paux E, Eversole K, Adam-Blondon A-F, Quesneville H (2018) Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data. Genome Biology, 19:111", "metadata": null } ], "credit": [ { "name": "URGI", "email": "urgi-contact@inrae.fr", "url": null, "orcidid": null, "gridid": null, "rorid": "04etk8241", "fundrefid": null, "typeEntity": null, "typeRole": [ "Developer", "Provider", "Maintainer", "Support" ], "note": "How to cite: https://urgi.versailles.inrae.fr/Platform/How-to-cite" } ], "owner": "jison", "additionDate": "2019-11-05T10:40:37Z", "lastUpdate": "2026-10-12T15:36:02.724346Z", "editPermission": { "type": "group", "authors": [ "nfrancillon", "raphael.flores", "cmichotey" ] }, "validated": 1, "homepage_status": 0, "elixir_badge": 0, "confidence_flag": null }, { "name": "FAIDARE", "description": "FAIDARE (FAIR Data-finder for Agronomic Research) was developed to meet the needs of the ELIXIR Plant Sciences community (https://elixir-europe.org/communities/plant-sciences).\nThe goal of this portal is to facilitate the discovery of public data on plant biology from an international federation of established data repositories. It is based on the “Breeding API” (BrAPI) specifications and facilitates access to genotyping and phenotyping datasets for crop and forest plants through an easy-to-use web interface. It also provides a standard interface that can be accessed programmatically via web services.\nIt is an extension of the generic DataDiscovery portal, a web portal that aims to provide researchers with quick and easy access to relevant biological data using specific keywords and filters. FAIDARE offers more detailed search and data extraction capabilities and capitalizes on the growing adoption of BrAPI.", "homepage": "https://urgi.versailles.inrae.fr/faidare/", "biotoolsID": "faidare", "biotoolsCURIE": "biotools:faidare", "version": [], "otherID": [], "relation": [ { "biotoolsID": "gnpis", "type": "uses" }, { "biotoolsID": "DataDiscovery", "type": "uses" } ], "function": [ { "operation": [ { "uri": "http://edamontology.org/operation_0337", "term": "Visualisation" }, { "uri": "http://edamontology.org/operation_3625", "term": "Relation extraction" }, { "uri": "http://edamontology.org/operation_3559", "term": "Ontology visualisation" }, { "uri": "http://edamontology.org/operation_0224", "term": "Query and retrieval" }, { "uri": "http://edamontology.org/operation_3908", "term": "Information retrieval" }, { "uri": "http://edamontology.org/operation_0227", "term": "Indexing" } ], "input": [ { "data": { "uri": "http://edamontology.org/data_2353", "term": "Ontology data" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_2337", "term": "Resource metadata" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_0920", "term": "Genotype/phenotype report" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_0968", "term": "Keyword" }, "format": [] } ], "output": [ { "data": { "uri": "http://edamontology.org/data_1188", "term": "DOI" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_3720", "term": "Geographic location" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_0842", "term": "Identifier" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_2080", "term": "Database search results" }, "format": [ { "uri": "http://edamontology.org/format_3464", "term": "JSON" }, { "uri": "http://edamontology.org/format_3752", "term": "CSV" } ] }, { "data": { "uri": "http://edamontology.org/data_2093", "term": "Data reference" }, "format": [] }, { "data": { "uri": "http://edamontology.org/data_0920", "term": "Genotype/phenotype report" }, "format": [ { "uri": "http://edamontology.org/format_3777", "term": "MCPD" } ] } ], "note": null, "cmd": null } ], "toolType": [ "Web application", "Web service", "Database portal", "Web API" ], "topic": [ { "uri": "http://edamontology.org/topic_0780", "term": "Plant biology" }, { "uri": "http://edamontology.org/topic_0625", "term": "Genotype and phenotype" }, { "uri": "http://edamontology.org/topic_3810", "term": "Agricultural science" }, { "uri": "http://edamontology.org/topic_0610", "term": "Ecology" }, { "uri": "http://edamontology.org/topic_0091", "term": "Bioinformatics" } ], "operatingSystem": [ "Linux" ], "language": [ "Bash", "JavaScript", "Java" ], "license": "BSD-3-Clause", "collectionID": [ "URGI", "elixir-fr-sdp-2019" ], "maturity": "Mature", "cost": "Free of charge", "accessibility": "Open access", "elixirPlatform": [ "Tools", "Data", "Interoperability" ], "elixirNode": [ "France" ], "elixirCommunity": [ "Plant Sciences" ], "link": [ { "url": "https://forgemia.inra.fr/urgi-is/faidare", "type": [ "Repository" ], "note": "GitLab code repository for FAIDARE" }, { "url": "https://forgemia.inra.fr/urgi-is/data-discovery", "type": [ "Repository" ], "note": null }, { "url": "https://github.com/elixir-europe/plant-faidare", "type": [ "Mirror" ], "note": "Code repository mirror link for FAIDARE" } ], "download": [], "documentation": [ { "url": "https://urgi.versailles.inrae.fr/faidare/swagger-ui.html", "type": [ "API documentation" ], "note": "Description of the API to access FAIDARE webservice following BRAPI API" }, { "url": "https://forgemia.inra.fr/urgi-is/faidare/blob/master/CONTRIBUTING.md", "type": [ "Contributions policy" ], "note": "How to contribute to FAIDARE software development" }, { "url": "https://urgi.versailles.inrae.fr/faidare/help", "type": [ "User manual" ], "note": "Tips to use the application" }, { "url": "https://urgi.versailles.inrae.fr/faidare/legal", "type": [ "Terms of use" ], "note": null }, { "url": "https://forgemia.inra.fr/urgi-is/faidare/blob/master/README.md", "type": [ "Installation instructions" ], "note": null }, { "url": "https://urgi.versailles.inrae.fr/faidare/join", "type": [ "Contributions policy" ], "note": "How to join the FAIDARE federation" }, { "url": "https://urgi.versailles.inrae.fr/Data-Services/Data-Access/Federations", "type": [ "General" ], "note": null }, { "url": "https://hal.inrae.fr/hal-04638310v1", "type": [ "General" ], "note": null } ], "publication": [], "credit": [ { "name": "URGI", "email": "urgi-contact@inrae.fr", "url": null, "orcidid": null, "gridid": null, "rorid": "04etk8241", "fundrefid": null, "typeEntity": null, "typeRole": [ "Developer", "Provider", "Maintainer", "Support" ], "note": "How to cite: https://urgi.versailles.inrae.fr/Platform/How-to-cite" } ], "owner": "nfrancillon", "additionDate": "2020-01-20T16:46:02Z", "lastUpdate": "2026-10-12T15:27:55.988282Z", "editPermission": { "type": "group", "authors": [ "cpommier", "urgi-contact", "cmichotey", "raphael.flores" ] }, "validated": 1, "homepage_status": 0, "elixir_badge": 0, "confidence_flag": null }, { "name": "Genetic and Genomic Information System for Plants (GnpIS)", "description": "GnpIS is an integrative and multi-species information system dedicated to plants, including forest trees. 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