From f9864d330ae178238e609d06608781afedcdad8d Mon Sep 17 00:00:00 2001 From: biosimulatorsdaemon Date: Thu, 22 Jun 2023 00:36:43 +0000 Subject: [PATCH 1/2] chore: Updated Identifiers.org namespaces [skip ci] --- biosimulators_utils/utils/identifiers_org.json | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/biosimulators_utils/utils/identifiers_org.json b/biosimulators_utils/utils/identifiers_org.json index cab054c8..98212aee 100644 --- a/biosimulators_utils/utils/identifiers_org.json +++ b/biosimulators_utils/utils/identifiers_org.json @@ -1 +1 @@ -[{"id": 1, "prefix": "chebi", "mirId": "MIR:00000002", "name": "ChEBI", "pattern": "^CHEBI:\\d+$", "description": "Chemical Entities of Biological Interest (ChEBI) is a freely available dictionary of molecular entities focused on 'small' chemical compounds.", "created": "2019-06-11T14:15:26.925+0000", "modified": "2019-06-11T14:15:26.925+0000", "resources": [{"id": 3, "mirId": "MIR:00100009", "urlPattern": "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:{$id}", "name": "ChEBI (Chemical Entities of Biological Interest)", "description": "ChEBI (Chemical Entities of Biological Interest)", "official": true, "providerCode": "ebi", "sampleId": "36927", "resourceHomeUrl": "https://www.ebi.ac.uk/chebi/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}, {"id": 6, "mirId": "MIR:00100565", "urlPattern": "http://purl.bioontology.org/ontology/CHEBI/CHEBI:{$id}", "name": "ChEBI through BioPortal", "description": "ChEBI through BioPortal", "official": false, "providerCode": "bptl", "sampleId": "36927", "resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/CHEBI", "institution": {"id": 5, "name": "National Center for Biomedical Ontology, Stanford", "homeUrl": "https://ncbo.bioontology.org/", "description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. 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Our tried and trusted solutions have been developed and refined by our dedicated team of health informatics experts who share the sector\u2019s passion and values for providing the best possible care, insight and service for patients and customers. Take a look through our range of expert services and support, and the benefits and opportunities these offer to health and care organisations and stakeholders. Get in touch to discuss your particular needs, ambitions and solutions. 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This collection references microarray experiments.", "created": "2019-06-11T14:17:12.968+0000", "modified": "2019-06-11T14:17:12.968+0000", "resources": [{"id": 1173, "mirId": "MIR:00100524", "urlPattern": "http://bugs.sgul.ac.uk/bugsbase/tabs/experiment.php?expt_id={$id}&action=view", "name": "BugBase Expt at University of London", "description": "BugBase Expt at University of London", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "288", "resourceHomeUrl": "http://bugs.sgul.ac.uk/E-BUGS", "institution": {"id": 1170, "name": "St George's, University of London", "homeUrl": "https://www.sgul.ac.uk/", "description": "St George\u2019s Hospital Medical School was established in 1733 and initially based at Hyde Park Corner, before moving to our Tooting site in 1980. It was the second institution in England to provide formal training courses for doctors.\nSt George\u2019s has a dynamic research culture, with teams working to improve the health of people of all ages, from children to the elderly, in populations locally and globally.", "rorId": "https://ror.org/040f08y74", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "288", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1174, "prefix": "tol", "mirId": "MIR:00000405", "name": "Tree of Life", "pattern": "^\\d+$", "description": "The Tree of Life Web Project (ToL) is a collaborative effort of biologists and nature enthusiasts from around the world. On more than 10,000 World Wide Web pages, the project provides information about biodiversity, the characteristics of different groups of organisms, and their evolutionary history (phylogeny). \r\n\r\nEach page contains information about a particular group, with pages linked one to another hierarchically, in the form of the evolutionary tree of life. Starting with the root of all Life on Earth and moving out along diverging branches to individual species, the structure of the ToL project thus illustrates the genetic connections between all living things.", "created": "2019-06-11T14:17:13.167+0000", "modified": "2019-06-11T14:17:13.167+0000", "resources": [{"id": 1176, "mirId": "MIR:00100525", "urlPattern": "http://tolweb.org/{$id}", "name": "Tree of Life Web", "description": "Tree of Life Web", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "98034", "resourceHomeUrl": "http://tolweb.org/tree/", "institution": {"id": 1175, "name": "University of Arizona", "homeUrl": "https://www.arizona.edu/", "description": "As Arizona\u2019s land-grant university, we are driven to do great things. It\u2019s our passion to transform the lives of our student Wildcats and to solve some of the biggest challenges facing our state and the world.", "rorId": "https://ror.org/03m2x1q45", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "98034", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1177, "prefix": "vario", "mirId": "MIR:00000406", "name": "VariO", "pattern": "^VariO:\\d+$", "description": "The Variation Ontology (VariO) is an ontology for the standardized, systematic description of effects, consequences and mechanisms of variations. It describes the effects of variations at the DNA, RNA and/or protein level.", "created": "2019-06-11T14:17:13.429+0000", "modified": "2019-06-11T14:17:13.429+0000", "resources": [{"id": 1180, "mirId": "MIR:00100566", "urlPattern": "http://purl.bioontology.org/ontology/VARIO/VariO:{$id}", "name": "VariO through BioPortal", "description": "VariO through BioPortal", "official": false, "providerCode": "bptl", "sampleId": "0294", "resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/VARIO", "institution": {"id": 5, "name": "National Center for Biomedical Ontology, Stanford", "homeUrl": "https://ncbo.bioontology.org/", "description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 1179, "mirId": "MIR:00100526", "urlPattern": "http://www.ontobee.org/search?ontology=VariO&keywords=VariO_{$id}&submit=Search+terms", "name": "VariO at Lund University", "description": "VariO at Lund University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "0294", "resourceHomeUrl": "http://www.variationontology.org/", "institution": {"id": 1178, "name": "Department of Experimental Medical Science, Lund University", "homeUrl": "https://www.medicine.lu.se/faculty-medicine-lund-university/departments/department-experimental-medical-science", "description": "Our mission is to perform molecular, cellular and integrative research at the highest international level and to train a new generation of successful scientists. We study biological processes that govern normal human bodily functions that are involved in disease pathogenesis. Several of our research environments have been recognized as outstanding both on the national and the European level. ", "rorId": null, "location": {"countryCode": "SE", "countryName": "Sweden"}}, "location": {"countryCode": "SE", "countryName": "Sweden"}, "deprecated": false, "deprecationDate": null}, {"id": 1181, "mirId": "MIR:00100677", "urlPattern": "https://www.ebi.ac.uk/ols/ontologies/vario/terms?obo_id=VariO:{$id}", "name": "VariO through OLS", "description": "VariO through OLS", "official": false, "providerCode": "ols", "sampleId": "0294", "resourceHomeUrl": "https://www.ebi.ac.uk/ols/ontologies/vario", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0294", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1182, "prefix": "vipr", "mirId": "MIR:00000407", "name": "ViPR Strain", "pattern": "^[A-Za-z 0-9]+$", "description": "The Virus Pathogen Database and Analysis Resource (ViPR) supports bioinformatics workflows for a broad range of human virus pathogens and other related viruses. It provides access to sequence records, gene and protein annotations, immune epitopes, 3D structures, and host factor data. This collection references viral strain information.", "created": "2019-06-11T14:17:13.893+0000", "modified": "2019-06-11T14:17:13.893+0000", "resources": [{"id": 1184, "mirId": "MIR:00100527", "urlPattern": "http://www.viprbrc.org/brc/viprStrainDetails.do?strainName={$id}&decorator=arena", "name": "ViPR Strain at J. Craig Venter Institute", "description": "ViPR Strain at J. Craig Venter Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "BeAn 70563", "resourceHomeUrl": "http://www.viprbrc.org/brc/home.do?decorator=vipr", "institution": {"id": 1183, "name": "J. Craig Venter Institute, San Diego, California", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "BeAn 70563", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1185, "prefix": "epd", "mirId": "MIR:00000408", "name": "EPD", "pattern": "^[A-Z-_0-9]+$", "description": "The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, for which the transcription start site has been determined experimentally. Access to promoter sequences is provided by pointers to positions in nucleotide sequence entries. The annotation part of an entry includes description of the initiation site mapping data, cross-references to other databases, and bibliographic references. EPD is structured in a way that facilitates dynamic extraction of biologically meaningful promoter subsets for comparative sequence analysis.", "created": "2019-06-11T14:17:14.109+0000", "modified": "2019-06-11T14:17:14.109+0000", "resources": [{"id": 1186, "mirId": "MIR:00100528", "urlPattern": "https://epd.expasy.org/cgi-bin/epd/query_result.pl?out_format=NICE&Entry_0={$id}", "name": "EPD at Swiss Institute of Bioinformatics", "description": "EPD at Swiss Institute of Bioinformatics", "official": false, "providerCode": "sib", "sampleId": "TA_H3", "resourceHomeUrl": "https://epd.expasy.org/epd", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "TA_H3", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1187, "prefix": "rfam", "mirId": "MIR:00000409", "name": "RFAM", "pattern": "^RF\\d{5}$", "description": "The Rfam database is a collection of RNA families, each represented by multiple sequence alignments, consensus secondary structures and covariance models (CMs). The families in Rfam break down into three broad functional classes: non-coding RNA genes, structured cis-regulatory elements and self-splicing RNAs. Typically these functional RNAs often have a conserved secondary structure which may be better preserved than the RNA sequence. The CMs used to describe each family are a slightly more complicated relative of the profile hidden Markov models (HMMs) used by Pfam. CMs can simultaneously model RNA sequence and the structure in an elegant and accurate fashion.", "created": "2019-06-11T14:17:14.331+0000", "modified": "2019-06-11T14:17:14.331+0000", "resources": [{"id": 1188, "mirId": "MIR:00100686", "urlPattern": "https://rfam.xfam.org/family/{$id}", "name": "Rfam at EMBL-EBI", "description": "Rfam at EMBL-EBI", "official": true, "providerCode": "ebi", "sampleId": "RF00230", "resourceHomeUrl": "https://rfam.xfam.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "RF00230", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1189, "prefix": "fbol", "mirId": "MIR:00000410", "name": "Fungal Barcode", "pattern": "^\\d+$", "description": "DNA barcoding is the use of short standardised segments of the genome for identification of species in all the Kingdoms of Life. The goal of the Fungal Barcoding site is to promote the DNA barcoding of fungi and other fungus-like organisms.", "created": "2019-06-11T14:17:14.533+0000", "modified": "2019-06-11T14:17:14.533+0000", "resources": [{"id": 1191, "mirId": "MIR:00100532", "urlPattern": "http://www.fungalbarcoding.org/BioloMICS.aspx?Table=Fungal barcodes&Rec={$id}&Fields=All&ExactMatch=T", "name": "Fungal Barcode at Fungal Biodiversity Centre", "description": "Fungal Barcode at Fungal Biodiversity Centre", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2224", "resourceHomeUrl": "http://www.fungalbarcoding.org/", "institution": {"id": 1190, "name": "Fungal Biodiversity Centre, Utrecht", "homeUrl": "https://wi.knaw.nl", "description": "The Westerdijk Fungal Biodiversity Institute performs highly innovative mycological research that contributes to the discovery and understanding of fungi and its biodiversity and potential solutions to societal challenges. The Westerdijk Institute has an encompassing and high quality collection of living fungi and related meta data that is highly utilized by public and private parties. The main focus of the Westerdijk Fungal Biodiversity Institute is and will continue to be to explore, study and preserve our fungal collection. We recognize the enormous potential of fungi in the application of solving the world\u2019s biggest challenges. We therefore enhance our partnering with the scientific community, both in the academic, medical, agricultural and industrial field for fundamental and applied research. We also built a new wing to our institute, dedicated to novel product discovery. ", "rorId": null, "location": {"countryCode": "NL", "countryName": "Netherlands"}}, "location": {"countryCode": "NL", "countryName": "Netherlands"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2224", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1192, "prefix": "aftol.taxonomy", "mirId": "MIR:00000411", "name": "AFTOL", "pattern": "^\\d+$", "description": "The Assembling the Fungal Tree of Life (AFTOL) project is dedicated to significantly enhancing our understanding of the evolution of the Kingdom Fungi, which represents one of the major clades of life. There are roughly 80,000 described species of Fungi, but the actual diversity in the group has been estimated to be about 1.5 million species.", "created": "2019-06-11T14:17:14.756+0000", "modified": "2019-06-11T14:17:14.756+0000", "resources": [{"id": 1194, "mirId": "MIR:00100533", "urlPattern": "http://wasabi.lutzonilab.net/pub/displayTaxonInfo?aftol_id={$id}", "name": "AFTOL at University of Minnesota", "description": "AFTOL at University of Minnesota", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "959", "resourceHomeUrl": "http://aftol.org/data.php", "institution": {"id": 1193, "name": "Department of Plant Biology, University of Minnesota, Minnesota", "homeUrl": "https://cbs.umn.edu/pmb", "description": "The Department of Plant and Microbial Biology is the academic home for a diverse and integrative group of scientists who study the genetics, ecology, evolution, and molecular biology of plants, fungi, and microbes. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "959", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1195, "prefix": "aspgd.locus", "mirId": "MIR:00000412", "name": "AspGD Locus", "pattern": "^[A-Za-z_0-9]+$", "description": "The Aspergillus Genome Database (AspGD) is a repository for information relating to fungi of the genus Aspergillus, which includes organisms of clinical, agricultural and industrial importance. AspGD facilitates comparative genomics by providing a full-featured genomics viewer, as well as matched and standardized sets of genomic information for the sequenced aspergilli. This collection references gene information.", "created": "2019-06-11T14:17:14.975+0000", "modified": "2019-06-11T14:17:14.975+0000", "resources": [{"id": 1197, "mirId": "MIR:00100534", "urlPattern": "http://www.aspergillusgenome.org/cgi-bin/locus.pl?dbid={$id}", "name": "AspGD at Stanford Medical School", "description": "AspGD at Stanford Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ASPL0000349247", "resourceHomeUrl": "http://www.aspgd.org/", "institution": {"id": 1196, "name": "Department of Genetics, Stanford University Medical School, Stanford, California", "homeUrl": "https://med.stanford.edu/genetics.html", "description": "A leader in the biomedical revolution, Stanford Medicine has a long tradition of leadership in pioneering research, creative teaching protocols and effective clinical therapies.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ASPL0000349247", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1198, "prefix": "aspgd.protein", "mirId": "MIR:00000413", "name": "AspGD Protein", "pattern": "^[A-Za-z_0-9]+$", "description": "The Aspergillus Genome Database (AspGD) is a repository for information relating to fungi of the genus Aspergillus, which includes organisms of clinical, agricultural and industrial importance. AspGD facilitates comparative genomics by providing a full-featured genomics viewer, as well as matched and standardized sets of genomic information for the sequenced aspergilli. This collection references protein information.", "created": "2019-06-11T14:17:15.227+0000", "modified": "2019-06-11T14:17:15.227+0000", "resources": [{"id": 1199, "mirId": "MIR:00100535", "urlPattern": "http://www.aspergillusgenome.org/cgi-bin/protein/proteinPage.pl?dbid={$id}", "name": "AspGD Protein at Stanford Medical School", "description": "AspGD Protein at Stanford Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ASPL0000349247", "resourceHomeUrl": "http://www.aspgd.org/", "institution": {"id": 1196, "name": "Department of Genetics, Stanford University Medical School, Stanford, California", "homeUrl": "https://med.stanford.edu/genetics.html", "description": "A leader in the biomedical revolution, Stanford Medicine has a long tradition of leadership in pioneering research, creative teaching protocols and effective clinical therapies.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ASPL0000349247", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1237, "prefix": "ndc", "mirId": "MIR:00000431", "name": "National Drug Code", "pattern": "^\\d+\\-\\d+\\-\\d+", "description": "The National Drug Code (NDC) is a unique, three-segment number used by the Food and Drug Administration (FDA) to identify drug products for commercial use. This is required by the Drug Listing Act of 1972. 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Bio2RDF defines a set of simple conventions to create RDF(S) compatible Linked Data from a diverse set of heterogeneously formatted sources obtained from multiple data providers.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0002-1975-61", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1200, "prefix": "autdb", "mirId": "MIR:00000415", "name": "AutDB", "pattern": "^[A-Z]+[A-Z-0-9]{2,}$", "description": "AutDB is a curated database for autism research. It is built on information extracted from the studies on molecular genetics and biology of Autism Spectrum Disorders (ASD). The four modules of AutDB include information on Human Genes, Animal models, Protein Interactions (PIN) and Copy Number Variants (CNV) respectively. It provides an annotated list of ASD candidate genes in the form of reference dataset for interrogating molecular mechanisms underlying the disorder.", "created": "2019-06-11T14:17:15.426+0000", "modified": "2019-06-11T14:17:15.426+0000", "resources": [{"id": 1202, "mirId": "MIR:00100538", "urlPattern": "http://autism.mindspec.org/GeneDetail/{$id}", "name": "AutDB at MindSpec", "description": "AutDB at MindSpec", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ADA", "resourceHomeUrl": "http://autism.mindspec.org/autdb/", "institution": {"id": 1201, "name": "MindSpec Inc., Fairfax, Virginia", "homeUrl": "http://www.mindspec.org/", "description": "Our core mission at MindSpec, a 501(c)(3) non profit organization, is to advance research on neurodevelopmental conditions. Founded in 2006, MindSpec is an independent, non-profit research organization established to facilitate the discovery of a cure for autism. 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All bacterial genome maps are supplemented with separate prophage genome maps as well as separate tRNA and rRNA maps. Each bacterial chromosome entry in BacMap contains graphs and tables on a variety of gene and protein statistics. Likewise, every bacterial species entry contains a bacterial 'biography' card, with taxonomic details, phenotypic details, textual descriptions and images. This collection references genome map information.", "created": "2019-06-11T14:17:15.634+0000", "modified": "2019-06-11T14:17:15.634+0000", "resources": [{"id": 1204, "mirId": "MIR:00100539", "urlPattern": "http://bacmap.wishartlab.com/maps/{$id}/index.html", "name": "BacMap Genome Map at University of Alberta", "description": "BacMap Genome Map at University of Alberta", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "AP011135", "resourceHomeUrl": "http://bacmap.wishartlab.com/", "institution": {"id": 1037, "name": "Department of Computing Science, Food and Nutritional Science, University of Alberta, Edmonton", "homeUrl": "https://www.ualberta.ca/agricultural-food-nutritional-science/index.html", "description": "The department of Agricultural, Food & Nutritional Science (AFNS) offers research and teachings related to the fields of Animal Science, Food Science and Bioresource, Human Nutrition and Plant Biosystems. 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This collection refers to developmental stages.", "created": "2019-06-11T14:17:16.333+0000", "modified": "2019-06-11T14:17:16.333+0000", "resources": [{"id": 1212, "mirId": "MIR:00100542", "urlPattern": "http://bgee.unil.ch/bgee/bgee?page=anatomy&action=organs&stage_id={$id}&stage_children=on", "name": "Bgee at Lausanne", "description": "Bgee at Lausanne", "official": false, "providerCode": "sib", "sampleId": "HsapDO:0000004", "resourceHomeUrl": "http://bgee.unil.ch/bgee/bgee", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "HsapDO:0000004", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1213, "prefix": "bgee.organ", "mirId": "MIR:00000420", "name": "Bgee organ", "pattern": "^(XAO|ZFA|EHDAA|EMAPA|EV|MA)\\:\\d+$", "description": "Bgee is a database of gene expression patterns within particular anatomical structures within a species, and between different animal species. 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GMD's metabolite profiles provide relative metabolite concentrations normalised according to fresh weight (or comparable quantitative data, such as volume, cell count, etc.) and internal standards (e.g. ribotol) of biological reference conditions and tissues.", "created": "2019-06-11T14:17:17.038+0000", "modified": "2019-06-11T14:17:17.038+0000", "resources": [{"id": 1220, "mirId": "MIR:00100546", "urlPattern": "http://gmd.mpimp-golm.mpg.de/profile/default.aspx?XemlId={$id}", "name": "Golm Metabolome Database (Profile) at Max Planck Institute of Molecular Plant Physiology", "description": "Golm Metabolome Database (Profile) at Max Planck Institute of Molecular Plant Physiology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "10b38aaf-b977-4950-85b8-f4775f66658d", "resourceHomeUrl": "http://gmd.mpimp-golm.mpg.de/", "institution": {"id": 806, "name": "Max Planck Institute of Molecular Plant Physiology, Potsdam", "homeUrl": "http://www.mpimp-golm.mpg.de/2168/en", "description": "The Max Planck Institute of Molecular Plant Physiology (MPI-MP) was founded in 1994, as one of 18 institutes on the territory of the former GDR. 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Analytes are subjected to a gas chromatograph coupled to a mass spectrometer, which records the mass spectrum and the retention time linked to an analyte. This collection references GC-MS spectra.", "created": "2019-06-11T14:17:17.255+0000", "modified": "2019-06-11T14:17:17.255+0000", "resources": [{"id": 1222, "mirId": "MIR:00100547", "urlPattern": "http://gmd.mpimp-golm.mpg.de/Spectrums/{$id}", "name": "Golm Metabolome Database (GC-MS Spectra) at Max Planck Institute of Molecular Plant Physiology", "description": "Golm Metabolome Database (GC-MS Spectra) at Max Planck Institute of Molecular Plant Physiology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "53d583d8-40c6-40e1-9296-23f821cd77a5", "resourceHomeUrl": "http://gmd.mpimp-golm.mpg.de/", "institution": {"id": 806, "name": "Max Planck Institute of Molecular Plant Physiology, Potsdam", "homeUrl": "http://www.mpimp-golm.mpg.de/2168/en", "description": "The Max Planck Institute of Molecular Plant Physiology (MPI-MP) was founded in 1994, as one of 18 institutes on the territory of the former GDR. The founding director was Prof. Dr. Dr. h.c. Lothar Willmitzer, who is the director of one of the three departments which have been established since then. 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Since metabolites often cannot be obtained in their respective native biological state, for example organic acids may be only acquirable as salts, the concept of reference substance was introduced. This collection references reference substances.", "created": "2019-06-11T14:17:17.475+0000", "modified": "2019-06-11T14:17:17.475+0000", "resources": [{"id": 1224, "mirId": "MIR:00100548", "urlPattern": "http://gmd.mpimp-golm.mpg.de/ReferenceSubstances/{$id}", "name": "Golm Metabolome Database (Reference Substance) at Max Planck Institute of Molecular Plant Physiology", "description": "Golm Metabolome Database (Reference Substance) at Max Planck Institute of Molecular Plant Physiology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "8cf84adb-b4db-4807-ac98-0004247c35df", "resourceHomeUrl": "http://gmd.mpimp-golm.mpg.de/", "institution": {"id": 806, "name": "Max Planck Institute of Molecular Plant Physiology, Potsdam", "homeUrl": "http://www.mpimp-golm.mpg.de/2168/en", "description": "The Max Planck Institute of Molecular Plant Physiology (MPI-MP) was founded in 1994, as one of 18 institutes on the territory of the former GDR. The founding director was Prof. Dr. Dr. h.c. Lothar Willmitzer, who is the director of one of the three departments which have been established since then. 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For GC-MS profiling analyses, polar metabolite extracts are chemically converted, i.e. derivatised into less polar and volatile compounds, so called analytes. This collection references analytes.", "created": "2019-06-11T14:17:17.661+0000", "modified": "2019-06-11T14:17:17.661+0000", "resources": [{"id": 1226, "mirId": "MIR:00100549", "urlPattern": "http://gmd.mpimp-golm.mpg.de/Analytes/{$id}", "name": "Golm Metabolome Database (Analyte) at Max Planck Institute of Molecular Plant Physiology", "description": "Golm Metabolome Database (Analyte) at Max Planck Institute of Molecular Plant Physiology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "4f0fa9b6-514f-4ff4-98cc-0009bc08eb80", "resourceHomeUrl": "http://gmd.mpimp-golm.mpg.de/", "institution": {"id": 806, "name": "Max Planck Institute of Molecular Plant Physiology, Potsdam", "homeUrl": "http://www.mpimp-golm.mpg.de/2168/en", "description": "The Max Planck Institute of Molecular Plant Physiology (MPI-MP) was founded in 1994, as one of 18 institutes on the territory of the former GDR. The founding director was Prof. Dr. Dr. h.c. 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This collection references interactor molecules.", "created": "2019-06-11T14:17:17.850+0000", "modified": "2019-06-11T14:17:17.850+0000", "resources": [{"id": 1228, "mirId": "MIR:00100550", "urlPattern": "https://www.ebi.ac.uk/intact/molecule/{$id}", "name": "IntAct Molecule at EBI", "description": "IntAct Molecule at EBI", "official": false, "providerCode": "ebi", "sampleId": "EBI-366083", "resourceHomeUrl": "https://www.ebi.ac.uk/intact/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EBI-366083", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1229, "prefix": "depod", "mirId": "MIR:00000428", "name": "DEPOD", "pattern": "^[A-Z0-9]+$", "description": "The human DEPhOsphorylation Database (DEPOD) contains information on known human active phosphatases and their experimentally verified protein and nonprotein substrates. Reliability scores are provided for dephosphorylation interactions, according to the type of assay used, as well as the number of laboratories that have confirmed such interaction. Phosphatase and substrate entries are listed along with the dephosphorylation site, bioassay type, and original literature, and contain links to other resources.", "created": "2019-06-11T14:17:18.034+0000", "modified": "2019-06-11T14:17:18.034+0000", "resources": [{"id": 1231, "mirId": "MIR:00100551", "urlPattern": "http://www.depod.bioss.uni-freiburg.de/showp.php?gene={$id}", "name": "DEPOD at EMBL", "description": "DEPOD at EMBL", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "PTPN1", "resourceHomeUrl": "http://www.depod.bioss.uni-freiburg.de", "institution": {"id": 1230, "name": "European Molecular Biology Laboratory EMBL, Heidelberg", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "PTPN1", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1232, "prefix": "cst", "mirId": "MIR:00000429", "name": "Cell Signaling Technology Pathways", "pattern": "^[A-Za-z0-9_-]+$", "description": "Cell Signaling Technology is a commercial organisation which provides a pathway portal to showcase their phospho-antibody products. This collection references pathways.", "created": "2019-06-11T14:17:18.324+0000", "modified": "2019-06-11T14:17:18.324+0000", "resources": [{"id": 1234, "mirId": "MIR:00100552", "urlPattern": "http://www.cellsignal.com/reference/pathway/{$id}.html", "name": "CST Pathways at Cell Signaling Technology", "description": "CST Pathways at Cell Signaling Technology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Akt_PKB", "resourceHomeUrl": "http://www.cellsignal.com/pathways/index.html", "institution": {"id": 1233, "name": "Cell Signaling Technology, Inc., Danvers, Massachusetts", "homeUrl": "https://www.cellsignal.com/", "description": "Cell Signaling Technology (CST) is a different kind of life sciences company\u2014one founded, owned, and run by active research scientists, with the highest standards of product and service quality, technological innovation, and scientific rigor for over 20 years. We consistently provide fellow scientists around the globe with best-in-class products and services to fuel their quests for discovery.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Akt_PKB", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1241, "prefix": "phytozome.locus", "mirId": "MIR:00000432", "name": "Phytozome Locus", "pattern": "^[A-Za-z0-9]+$", "description": "Phytozome is a project to facilitate comparative genomic studies amongst green plants. Famlies of orthologous and paralogous genes that represent the modern descendents of ancestral gene sets are constructed at key phylogenetic nodes. These families allow easy access to clade specific orthology/paralogy relationships as well as clade specific genes and gene expansions. This collection references locus information.", "created": "2019-06-11T14:17:19.049+0000", "modified": "2019-06-11T14:17:19.049+0000", "resources": [{"id": 1243, "mirId": "MIR:00100556", "urlPattern": "http://www.phytozome.net/genePage.php?crown&method=0&search=1&detail=1&searchText=locusname:{$id}", "name": "Phytozome Locus at Joint Genome Institute", "description": "Phytozome Locus at Joint Genome Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Glyma0021s00410", "resourceHomeUrl": "http://www.phytozome.net/", "institution": {"id": 1242, "name": "Joint Genome Institute, California, and the Center for Integrative Genomics, Lausanne", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Glyma0021s00410", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1244, "prefix": "subtilist", "mirId": "MIR:00000433", "name": "SubtiList", "pattern": "^BG\\d+$", "description": "SubtiList serves to collate and integrate various aspects of the genomic information from B. subtilis, the paradigm of sporulating Gram-positive bacteria.\r\nSubtiList provides a complete dataset of DNA and protein sequences derived from the paradigm strain B. subtilis 168, linked to the relevant annotations and functional assignments.", "created": "2019-06-11T14:17:19.310+0000", "modified": "2019-06-11T14:17:19.310+0000", "resources": [{"id": 1246, "mirId": "MIR:00100557", "urlPattern": "http://genolist.pasteur.fr/SubtiList/genome.cgi?external_query+{$id}", "name": "SubtiList at Pasteur Institute", "description": "SubtiList at Pasteur Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "BG11523", "resourceHomeUrl": "http://genolist.pasteur.fr/SubtiList/", "institution": {"id": 1245, "name": "Pasteur Institute, Paris", "homeUrl": "http://www.pasteur.fr/en", "description": "The Institut Pasteur is a private, non-profit foundation. Its mission is to help prevent and treat diseases, mainly those of infectious origin, through research, teaching, and public health initiatives.", "rorId": "https://ror.org/0495fxg12", "location": {"countryCode": "FR", "countryName": "France"}}, "location": {"countryCode": "FR", "countryName": "France"}, "deprecated": false, "deprecationDate": null}], "sampleId": "BG11523", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1247, "prefix": "dailymed", "mirId": "MIR:00000434", "name": "DailyMed", "pattern": "^[A-Za-z0-9-]+", "description": "DailyMed provides information about marketed drugs. This information includes FDA labels (package inserts). The Web site provides a standard, comprehensive, up-to-date, look-up and download resource of medication content and labeling as found in medication package inserts. Drug labeling is the most recent submitted to the Food and Drug Administration (FDA) and currently in use; it may include, for example, strengthened warnings undergoing FDA review or minor editorial changes. These labels have been reformatted to make them easier to read.", "created": "2019-06-11T14:17:19.532+0000", "modified": "2019-06-11T14:17:19.532+0000", "resources": [{"id": 1249, "mirId": "MIR:00100558", "urlPattern": "https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid={$id}", "name": "DailyMed at NLM", "description": "DailyMed at NLM", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "973a9333-fec7-46dd-8eb5-25738f06ee54", "resourceHomeUrl": "https://dailymed.nlm.nih.gov/dailymed/", "institution": {"id": 1248, "name": "U.S. National Library of Medicine, Bethesda, Maryland", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "973a9333-fec7-46dd-8eb5-25738f06ee54", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1250, "prefix": "sider.drug", "mirId": "MIR:00000435", "name": "SIDER Drug", "pattern": "^\\d+$", "description": "SIDER (Side Effect Resource) is a public, computer-readable side effect resource that connects drugs to side effect terms. 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We focus on developing fundamentally new technologies, conducting basic research that furthers the field of computing, and inspiring and educating future generations of scientists and technologists.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "3771877", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1258, "prefix": "broad", "mirId": "MIR:00000438", "name": "Broad Fungal Genome Initiative", "pattern": "^S\\d+$", "description": "Magnaporthe grisea, the causal agent of rice blast disease, is one of the most devasting threats to food security worldwide and is a model organism for studying fungal phytopathogenicity and host-parasite interactions. 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As part of the Broad Fungal Genome Initiative, the Magnaporthe comparative project includes the finished M. oryzae (formerly M. grisea) genome, as well as the draft assemblies of Gaeumannomyces graminis var. tritici and M. poae.", "created": "2019-06-11T14:17:20.539+0000", "modified": "2019-06-11T14:17:20.539+0000", "resources": [{"id": 1260, "mirId": "MIR:00100569", "urlPattern": "https://www.broadinstitute.org/annotation/genome/magnaporthe_grisea/GeneDetails.html?sp={$id}", "name": "Broad Fungal Genome Initiative at Broad Institute", "description": "Broad Fungal Genome Initiative at Broad Institute", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "S7000002168151102", "resourceHomeUrl": "https://www.broadinstitute.org/annotation/genome/magnaporthe_grisea/", "institution": {"id": 1259, "name": "Broad Institute of MIT and Harvard, Cambridge, Massachuchetts", "homeUrl": "https://ror.org/05a0ya142", "description": "The Broad Institute of MIT and Harvard is a research organization that convenes a community of researchers from across many disciplines and partner institutions\u2014MIT, Harvard, and Harvard-affiliated hospitals.", "rorId": "https://ror.org/05a0ya142", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "S7000002168151102", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1261, "prefix": "coriell", "mirId": "MIR:00000439", "name": "Coriell Cell Repositories", "pattern": "^[A-Z]{2}\\d+$", "description": "The Coriell Cell Repositories provide essential research reagents to the scientific community by establishing, verifying, maintaining, and distributing cell cultures and DNA derived from cell cultures. 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We are a state agriculture agency part of Texas A&M AgriLife, which allows us to fund research across many fields.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "aaeA", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1270, "prefix": "genprop", "mirId": "MIR:00000443", "name": "Genome Properties", "pattern": "^GenProp\\d+$", "description": "Genome properties is an annotation system whereby functional attributes can be assigned to a genome, based on the presence of a defined set of protein signatures within that genome.", "created": "2019-06-11T14:17:21.507+0000", "modified": "2019-06-11T14:17:21.507+0000", "resources": [{"id": 1271, "mirId": "MIR:00100910", "urlPattern": "https://www.ebi.ac.uk/interpro/genomeproperties/#{$id}", "name": "Genome Properties", "description": "Genome Properties", "official": true, "providerCode": "ebi", "sampleId": "GenProp0699", "resourceHomeUrl": "https://www.ebi.ac.uk/interpro/genomeproperties/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "GenProp0699", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1272, "prefix": "jstor", "mirId": "MIR:00000444", "name": "JSTOR", "pattern": "^\\d+$", "description": "JSTOR (Journal Storage) is a digital library containing digital versions of historical academic journals, as well as books, pamphlets and current issues of journals. Some public domain content is free to access, while other articles require registration.", "created": "2019-06-11T14:17:21.690+0000", "modified": "2019-06-11T14:17:21.690+0000", "resources": [{"id": 1274, "mirId": "MIR:00100575", "urlPattern": "http://www.jstor.org/stable/{$id}", "name": "JSTOR Online", "description": "JSTOR Online", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "3075966", "resourceHomeUrl": "http://www.jstor.org/", "institution": {"id": 1273, "name": "Ithaka Harbors, Inc., New York", "homeUrl": "https://www.ithaka.org/", "description": "We are a nonprofit with a mission to improve access to knowledge and education for people around the world. We believe education is key to the well-being of individuals and society, and we work to make it more effective and affordable. 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Each data release contains the complete genomic sequences for all viral pathogens and related strains that are available for species in the above-named families. In addition to sequence data, the VBRC provides a curation for each virus species, resulting in a searchable, comprehensive mini-review of gene function relating genotype to biological phenotype, with special emphasis on pathogenesis.", "created": "2019-06-11T14:17:22.962+0000", "modified": "2019-06-11T14:17:22.962+0000", "resources": [{"id": 1288, "mirId": "MIR:00100582", "urlPattern": "http://vbrc.org/gene_detail.asp?gene_id={$id}", "name": "VBRC at University of Alabama", "description": "VBRC at University of Alabama", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "35742", "resourceHomeUrl": "http://vbrc.org/", "institution": {"id": 1287, "name": "University of Alabama, Birmingham and the University of Victoria, British Columbia", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "35742", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1289, "prefix": "viralzone", "mirId": "MIR:00000449", "name": "ViralZone", "pattern": "^\\d+$", "description": "ViralZone is a resource bridging textbook knowledge with genomic and proteomic sequences. It provides fact sheets on all known virus families/genera with easy access to sequence data. A selection of reference strains (RefStrain) provides annotated standards to circumvent the exponential increase of virus sequences. Moreover ViralZone offers a complete set of detailed and accurate virion pictures.", "created": "2019-06-11T14:17:23.207+0000", "modified": "2019-06-11T14:17:23.207+0000", "resources": [{"id": 1291, "mirId": "MIR:00100583", "urlPattern": "http://viralzone.expasy.org/all_by_protein/{$id}.html", "name": "ViralZone at SIB", "description": "ViralZone at SIB", "official": false, "providerCode": "sib", "sampleId": "992", "resourceHomeUrl": "http://www.expasy.org/viralzone/", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "992", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1294, "prefix": "rgd.qtl", "mirId": "MIR:00000451", "name": "Rat Genome Database qTL", "pattern": "^\\d+$", "description": "Rat Genome Database seeks to collect, consolidate, and integrate rat genomic and genetic data with curated functional and physiological data and make these data widely available to the scientific community. This collection references quantitative trait loci (qTLs), providing phenotype and disease descriptions, mapping, and strain information as well as links to markers and candidate genes.", "created": "2019-06-11T14:17:23.659+0000", "modified": "2019-06-11T14:17:23.659+0000", "resources": [{"id": 1296, "mirId": "MIR:00100586", "urlPattern": "http://rgd.mcw.edu/rgdweb/report/qtl/main.html?id={$id}", "name": "Rat Genome Database qTL at Medical College of Wisconsin", "description": "Rat Genome Database qTL at Medical College of Wisconsin", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1354581", "resourceHomeUrl": "http://rgd.mcw.edu/", "institution": {"id": 1295, "name": "Medical College of Wisconsin, Milwaukee, Wisconsin", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1354581", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1297, "prefix": "rgd.strain", "mirId": "MIR:00000452", "name": "Rat Genome Database strain", "pattern": "^\\d+$", "description": "Rat Genome Database seeks to collect, consolidate, and integrate rat genomic and genetic data with curated functional and physiological data and make these data widely available to the scientific community. This collection references strain reports, which include a description of strain origin, disease, phenotype, genetics and immunology.", "created": "2019-06-11T14:17:23.876+0000", "modified": "2019-06-11T14:17:23.876+0000", "resources": [{"id": 1298, "mirId": "MIR:00100587", "urlPattern": "http://rgd.mcw.edu/rgdweb/report/strain/main.html?id={$id}", "name": "Rat Genome Database strain at Medical College of Wisconsin", "description": "Rat Genome Database strain at Medical College of Wisconsin", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "5688061", "resourceHomeUrl": "http://rgd.mcw.edu/", "institution": {"id": 1295, "name": "Medical College of Wisconsin, Milwaukee, Wisconsin", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "5688061", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1299, "prefix": "door", "mirId": "MIR:00000453", "name": "DOOR", "pattern": "^\\d+$", "description": "DOOR (Database for prOkaryotic OpeRons) contains computationally predicted operons of all the sequenced prokaryotic genomes. It includes operons for RNA genes.", "created": "2019-06-11T14:17:24.062+0000", "modified": "2019-06-11T14:17:24.062+0000", "resources": [{"id": 1301, "mirId": "MIR:00100588", "urlPattern": "http://csbl.bmb.uga.edu/DOOR/operon.php?id={$id}", "name": "DOOR v1 at University of Georgia", "description": "DOOR v1 at University of Georgia", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1398574", "resourceHomeUrl": "http://csbl.bmb.uga.edu/DOOR/operon.php", "institution": {"id": 1300, "name": "Computational Systems Biology Laboratory, Department of Biochemistry and Molecular Biology, University of Georgia, Athens, Georgia", "homeUrl": "http://csbl.bmb.uga.edu/new/", "description": "The Computational Systems Biology Lab (CSBL) in the Department of Biochemistry and Molecular Biology at the University of Georgia consists of scientists with highly diversified training backgrounds, ranging from biochemistry, computational chemistry, molecular biology, biophysics, physics to computer science, statistics, and mathematics. Our common interests are in the development of computational tools for solving biological problems. Our work ranges from the construction of mathematical/statistical models to the development of algorithms to code implementation to applications of computational tools to solve various bio-data analysis and modeling problems.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1398574", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1302, "prefix": "degradome", "mirId": "MIR:00000454", "name": "Degradome Database", "pattern": "^[AMCST][0-9x][0-9]$", "description": "The Degradome Database contains information on the complete set of predicted proteases present in a a variety of mammalian species that have been subjected to whole genome sequencing. Each protease sequence is curated and, when necessary, cloned and sequenced.", "created": "2019-06-11T14:17:24.294+0000", "modified": "2019-06-11T14:17:24.294+0000", "resources": [{"id": 1304, "mirId": "MIR:00100589", "urlPattern": "http://degradome.uniovi.es/cgi-bin/protease/{$id}", "name": "Degradome Database at", "description": "Degradome Database at", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Ax1", "resourceHomeUrl": "http://degradome.uniovi.es/", "institution": {"id": 1303, "name": "Departamento de Bioqu\u00edmica y Biolog\u00eda Molecular, Facultad de Medicina, Universidad de Oviedo", "homeUrl": "https://bbm.uniovi.es/", "description": "El Departamento de Bioqu\u00edmica y Biolog\u00eda Molecular es la unidad de docencia e investigaci\u00f3n encargada de coordinar las ense\u00f1anzas en este \u00e1rea de acuerdo con la programaci\u00f3n docente de la Universidad de Oviedo, as\u00ed como de apoyar e impulsar las actividades e iniciativas docentes e investigadoras del profesorado en esta materia.", "rorId": null, "location": {"countryCode": "ES", "countryName": "Spain"}}, "location": {"countryCode": "ES", "countryName": "Spain"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Ax1", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1305, "prefix": "dbd", "mirId": "MIR:00000455", "name": "DBD", "pattern": "^\\d+$", "description": "The DBD (transcription factor database) provides genome-wide transcription factor predictions for organisms across the tree of life. The prediction method identifies sequence-specific DNA-binding transcription factors through homology using profile hidden Markov models (HMMs) of domains from Pfam and SUPERFAMILY. It does not include basal transcription factors or chromatin-associated proteins.", "created": "2019-06-11T14:17:24.514+0000", "modified": "2019-06-11T14:17:24.514+0000", "resources": [{"id": 1306, "mirId": "MIR:00100590", "urlPattern": "http://www.transcriptionfactor.org/index.cgi?Search/Domain+domain:{$id}+cat:DBD", "name": "DBD at MRC Laboratory of Molecular Biology", "description": "DBD at MRC Laboratory of Molecular Biology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "0045310", "resourceHomeUrl": "http://www.transcriptionfactor.org/", "institution": {"id": 1026, "name": "MRC Laboratory of Molecular Biology, Cambridge", "homeUrl": "http://www2.mrc-lmb.cam.ac.uk/", "description": "The MRC Laboratory of Molecular Biology (LMB) is a research institute dedicated to the understanding of important biological processes at the levels of atoms, molecules, cells and organisms. In doing so, we provide knowledge needed to solve key problems in human health.", "rorId": "https://ror.org/00tw3jy02", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0045310", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1307, "prefix": "datf", "mirId": "MIR:00000456", "name": "DATF", "pattern": "^AT[1-5]G\\d{5}(\\.\\d+)?$", "description": "DATF contains known and predicted Arabidopsis transcription factors (1827 genes in 56 families) with the unique information of 1177 cloned sequences and many other features including 3D structure templates, EST expression information, transcription factor binding sites and nuclear location signals.", "created": "2019-06-11T14:17:24.701+0000", "modified": "2019-06-11T14:17:24.701+0000", "resources": [{"id": 1309, "mirId": "MIR:00100591", "urlPattern": "http://planttfdb.cbi.pku.edu.cn/tf.php?sp=Ath&did={$id}", "name": "DATF through PlantTFDB", "description": "DATF through PlantTFDB", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "AT1G01030.1", "resourceHomeUrl": "http://datf.cbi.pku.edu.cn/", "institution": {"id": 1612, "name": "Peking University", "homeUrl": "http://english.pku.edu.cn/", "description": "Peking University is a comprehensive and national key university. The campus, known as \"Yan Yuan\"\uff08the garden of Yan\uff09, is situated at Haidian District in the western suburb of Beijing, with a total area of 2,743,532 square metres (or 274 hectares). It stands near to the Yuanmingyuan Garden and the Summer Palace.\nPeking University is proud of its outstanding faculty, including 48 members of the Chinese Academy of Sciences (CAS), 9 members of the Chinese Academy of Engineering (CAE), and 21 members of the Third World Academy of Sciences (TWAS).", "rorId": "https://ror.org/02v51f717", "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "AT1G01030.1", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1310, "prefix": "iuphar.ligand", "mirId": "MIR:00000457", "name": "IUPHAR ligand", "pattern": "^\\d+$", "description": "The IUPHAR Compendium details the molecular, biophysical and pharmacological properties of identified mammalian sodium, calcium and potassium channels, as well as the related cyclic nucleotide-modulated ion channels and the recently described transient receptor potential channels. It includes information on nomenclature systems, and on inter and intra-species molecular structure variation. This collection references ligands.", "created": "2019-06-11T14:17:24.936+0000", "modified": "2019-06-11T14:17:24.936+0000", "resources": [{"id": 1311, "mirId": "MIR:00100592", "urlPattern": "http://www.guidetopharmacology.org/GRAC/LigandDisplayForward?ligandId={$id}", "name": "IUPHAR ligand at University of Edinburgh", "description": "IUPHAR ligand at University of Edinburgh", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "1755", "resourceHomeUrl": "http://www.guidetopharmacology.org/GRAC/LigandListForward?database=all", "institution": {"id": 827, "name": "Centre for Cardiovascular Science, University of Edinburgh, Edinburgh", "homeUrl": "https://www.ed.ac.uk/cardiovascular-science", "description": "The Centre for Cardiovascular Science (CVS) was one of the first multidisciplinary research centers in Edinburgh and has been a model for many more. Initiated in 1998 by a \u00a37M Wellcome Trust Cardiovascular Research Initiative Award and consolidated by over \u00a320M in serial BHF strategic awards, the groups constituting the CVS came together on the Little France campus in 2005 to form a \"Centre for Cardiovascular Risk & Resolution\" in the Queen's Medical Research Institute (QMRI). Today CVS has core facilities and training programs across three buildings at Little France - the QMRI, the Chancellor's Building, and the Scottish Centre for Regenerative Medicine.", "rorId": "https://ror.org/002g4nt27", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1755", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1312, "prefix": "molbase", "mirId": "MIR:00000458", "name": "Molbase", "pattern": "^(\\d{1,7}\\-\\d{2}\\-\\d)|([A-Za-z0-9\\+\\-\\_]+)$", "description": "Molbase provides compound data information for researchers as well as listing suppliers and price information. It can be searched by keyword or CAS indetifier.", "created": "2019-06-11T14:17:25.144+0000", "modified": "2019-06-11T14:17:25.144+0000", "resources": [{"id": 1314, "mirId": "MIR:00100593", "urlPattern": "http://www.molbase.com/en/index.php?app=search&search_keyword={$id}", "name": "Molbase at Chinese Academy of Sciences", "description": "Molbase at Chinese Academy of Sciences", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "128796-39-4", "resourceHomeUrl": "http://www.molbase.com/", "institution": {"id": 1313, "name": "Chinese Academy of Sciences, Xuhui District Shanghai", "homeUrl": "http://english.cas.cn/", "description": "The Chinese Academy of Sciences is the linchpin of China\u2019s drive to explore and harness high technology and the natural sciences for the benefit of China and the world. CAS brings together scientists and engineers from China and around the world to address both theoretical and applied problems using world-class scientific and management approaches.", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "128796-39-4", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1315, "prefix": "yrcpdr", "mirId": "MIR:00000459", "name": "YRC PDR", "pattern": "^\\d+$", "description": "The Yeast Resource Center Public Data Repository (YRC PDR) serves as a single point of access for the experimental data produced from many collaborations typically studying Saccharomyces cerevisiae (baker's yeast). The experimental data include large amounts of mass spectrometry results from protein co-purification experiments, yeast two-hybrid interaction experiments, fluorescence microscopy images and protein structure predictions.", "created": "2019-06-11T14:17:25.397+0000", "modified": "2019-06-11T14:17:25.397+0000", "resources": [{"id": 1317, "mirId": "MIR:00100594", "urlPattern": "http://yeastrc.org/pdr/viewProtein.do?id={$id}", "name": "YRC PDR at University of Washington", "description": "YRC PDR at University of Washington", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2673500", "resourceHomeUrl": "http://www.yeastrc.org/pdr/", "institution": {"id": 1316, "name": "Department of Biochemistry, University of Washington, Seattle", "homeUrl": "https://sites.uw.edu/biochemistry/", "description": "The Department of Biochemistry at the University of Washington has contributed to many phases of this research. Initially recognized for incisive studies of the structure and function of proteins, and the mechanisms of enzyme action, the department branched out into a multitude of other areas. These included: developmental biology of flies, fish, frogs, and mice; molecular mechanisms of aging in yeast and mammals; vertebrate visual and immune responses; chromosome dynamics, cell division, DNA replication and repair; energy transduction during photosynthesis; protein secretion and membrane fusion; translational control and regulated protein degradation; protein structure determination by crystallography and NMR spectroscopy; and protein structure prediction and enzyme design.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2673500", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1318, "prefix": "yid", "mirId": "MIR:00000460", "name": "Yeast Intron Database v3", "pattern": "^[A-Z0-9]+$", "description": "The YEast Intron Database (version 3) contains information on the spliceosomal introns of the yeast Saccharomyces cerevisiae. It includes expression data that relates to the efficiency of splicing relative to other processes in strains of yeast lacking nonessential splicing factors. The data are displayed on each intron page. An updated version of the database is available through [MIR:00000521].", "created": "2019-06-11T14:17:25.610+0000", "modified": "2019-06-11T14:17:25.610+0000", "resources": [{"id": 1320, "mirId": "MIR:00100595", "urlPattern": "http://metarray.ucsc.edu/cgi-bin/intron/yirIntrondb?orfName={$id}", "name": "Yeast Intron Database version 3 at Baskin School of Engineering", "description": "Yeast Intron Database version 3 at Baskin School of Engineering", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "SNR17A", "resourceHomeUrl": "http://compbio.soe.ucsc.edu/yeast_introns.html", "institution": {"id": 1319, "name": "University of California, Santa Cruz", "homeUrl": "https://www.ucsc.edu", "description": "UC Santa Cruz opened in 1965 with 650 students. During the 2018-2019 academic year, 16,983 undergraduate and 1,822 graduate students were enrolled.\n", "rorId": "https://ror.org/03s65by71", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "SNR17A", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1321, "prefix": "funcbase.fly", "mirId": "MIR:00000461", "name": "FuncBase Fly", "pattern": "^\\d+$", "description": "Computational gene function prediction can serve to focus experimental resources on high-priority experimental tasks. FuncBase is a web resource for viewing quantitative machine learning-based gene function annotations. Quantitative annotations of genes, including fungal and mammalian genes, with Gene Ontology terms are accompanied by a community feedback system. Evidence underlying function annotations is shown. FuncBase provides links to external resources, and may be accessed directly or via links from species-specific databases. This collection references Drosophila data.", "created": "2019-06-11T14:17:25.854+0000", "modified": "2019-06-11T14:17:25.854+0000", "resources": [{"id": 1323, "mirId": "MIR:00100596", "urlPattern": "http://func.mshri.on.ca/fly/genes/list_functional_scores/{$id}", "name": "FuncBase Fly at Harvard Medical School", "description": "FuncBase Fly at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "10194", "resourceHomeUrl": "http://func.mshri.on.ca/fly", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "10194", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1324, "prefix": "funcbase.human", "mirId": "MIR:00000462", "name": "FuncBase Human", "pattern": "^\\d+$", "description": "Computational gene function prediction can serve to focus experimental resources on high-priority experimental tasks. FuncBase is a web resource for viewing quantitative machine learning-based gene function annotations. Quantitative annotations of genes, including fungal and mammalian genes, with Gene Ontology terms are accompanied by a community feedback system. Evidence underlying function annotations is shown. FuncBase provides links to external resources, and may be accessed directly or via links from species-specific databases. This collection references human data.", "created": "2019-06-11T14:17:26.074+0000", "modified": "2019-06-11T14:17:26.074+0000", "resources": [{"id": 1325, "mirId": "MIR:00100597", "urlPattern": "http://func.mshri.on.ca/human/genes/list_functional_scores/{$id}", "name": "FuncBase Human at Harvard Medical School", "description": "FuncBase Human at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "119514", "resourceHomeUrl": "http://func.mshri.on.ca/human/", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "119514", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1326, "prefix": "funcbase.mouse", "mirId": "MIR:00000463", "name": "FuncBase Mouse", "pattern": "^\\d+$", "description": "Computational gene function prediction can serve to focus experimental resources on high-priority experimental tasks. FuncBase is a web resource for viewing quantitative machine learning-based gene function annotations. Quantitative annotations of genes, including fungal and mammalian genes, with Gene Ontology terms are accompanied by a community feedback system. Evidence underlying function annotations is shown. FuncBase provides links to external resources, and may be accessed directly or via links from species-specific databases. This collection references mouse.", "created": "2019-06-11T14:17:26.285+0000", "modified": "2019-06-11T14:17:26.285+0000", "resources": [{"id": 1327, "mirId": "MIR:00100598", "urlPattern": "http://func.mshri.on.ca/mouse/genes/list_functional_scores/{$id}", "name": "FuncBase Mouse at Harvard Medical School", "description": "FuncBase Mouse at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1351341", "resourceHomeUrl": "http://func.mshri.on.ca/mouse/", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1351341", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1881, "prefix": "cbioportal", "mirId": "MIR:00000679", "name": "The cBioPortal for Cancer Genomics", "pattern": "^[a-z0-9\\_]+$", "description": "The cBioPortal for Cancer Genomics provides visualization, analysis and download of large-scale cancer genomics data sets.", "created": "2019-06-11T14:18:18.874+0000", "modified": "2019-06-11T14:18:18.874+0000", "resources": [{"id": 1883, "mirId": "MIR:00100909", "urlPattern": "http://www.cbioportal.org/study?id={$id}#summary", "name": "The cBioPortal for Cancer Genomics", "description": "The cBioPortal for Cancer Genomics", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "laml_tcga_pub", "resourceHomeUrl": "http://www.cbioportal.org", "institution": {"id": 1882, "name": "Memorial Sloan Kettering Cancer Center", "homeUrl": "https://www.mskcc.org/", "description": "The people of Memorial Sloan Kettering Cancer Center (MSK) are united by a singular mission: ending cancer for life. Our specialized care teams provide personalized, compassionate, expert care to patients of all ages. Informed by basic research done at our Sloan Kettering Institute, scientists across MSK collaborate to conduct innovative translational and clinical research that is driving a revolution in our understanding of cancer as a disease and improving the ability to prevent, diagnose, and treat it. MSK is dedicated to training the next generation of scientists and clinicians, who go on to pursue our mission at MSK and around the globe. One of the world\u2019s most respected comprehensive centers devoted exclusively to cancer, we have been recognized as one of the top two cancer hospitals in the country by U.S. News & World Report for more than 30 years. ", "rorId": "https://ror.org/02yrq0923", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "laml_tcga_pub", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1328, "prefix": "funcbase.yeast", "mirId": "MIR:00000464", "name": "FuncBase Yeast", "pattern": "^\\d+$", "description": "Computational gene function prediction can serve to focus experimental resources on high-priority experimental tasks. FuncBase is a web resource for viewing quantitative machine learning-based gene function annotations. Quantitative annotations of genes, including fungal and mammalian genes, with Gene Ontology terms are accompanied by a community feedback system. Evidence underlying function annotations is shown. FuncBase provides links to external resources, and may be accessed directly or via links from species-specific databases. This collection references yeast.", "created": "2019-06-11T14:17:26.470+0000", "modified": "2019-06-11T14:17:26.470+0000", "resources": [{"id": 1329, "mirId": "MIR:00100599", "urlPattern": "http://func.mshri.on.ca/yeast/genes/list_functional_scores/{$id}", "name": "FuncBase Yeast at Harvard Medical School", "description": "FuncBase Yeast at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2701", "resourceHomeUrl": "http://func.mshri.on.ca/yeast", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2701", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1330, "prefix": "ydpm", "mirId": "MIR:00000465", "name": "YDPM", "pattern": "^Y[A-Z]{2}\\d+[CW]$", "description": "The YDPM database serves to support the Yeast Deletion and the Mitochondrial Proteomics Project. The project aims to increase the understanding of mitochondrial function and biogenesis in the context of the cell. In the Deletion Project, strains from the deletion collection were monitored under 9 different media conditions selected for the study of mitochondrial function. The YDPM database contains both the raw data and growth rates calculated for each strain in each media condition.", "created": "2019-06-11T14:17:26.654+0000", "modified": "2019-06-11T14:17:26.654+0000", "resources": [{"id": 1332, "mirId": "MIR:00100600", "urlPattern": "http://www-deletion.stanford.edu/cgi-bin/YDPM/YDPM_search.cgi?thelist={$id}", "name": "YDPM at Stanford University School of Medicine", "description": "YDPM at Stanford University School of Medicine", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "YAL001C", "resourceHomeUrl": "http://www-deletion.stanford.edu/YDPM/", "institution": {"id": 1331, "name": "Stanford University School of Medicine, Stanford, California", "homeUrl": "http://med.stanford.edu/", "description": "A leader in the biomedical revolution, Stanford Medicine has a long tradition of leadership in pioneering research, creative teaching protocols and effective clinical therapies.", "rorId": "https://ror.org/03mtd9a03", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "YAL001C", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1333, "prefix": "wb.rnai", "mirId": "MIR:00000466", "name": "WormBase RNAi", "pattern": "^WBRNAi\\d{8}$", "description": "WormBase is an online bioinformatics database of the biology and genome of the model organism Caenorhabditis elegans and related nematodes. It is used by the C. elegans research community both as an information resource and as a mode to publish and distribute their results. 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This collection references ICE families.", "created": "2019-06-11T14:17:27.601+0000", "modified": "2019-06-11T14:17:27.601+0000", "resources": [{"id": 1343, "mirId": "MIR:00100605", "urlPattern": "http://db-mml.sjtu.edu.cn/ICEberg/browse_result.php?type=fam&fam_id={$id}", "name": "ICEberg family at Shanghai Jiaotong University", "description": "ICEberg family at Shanghai Jiaotong University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1", "resourceHomeUrl": "http://db-mml.sjtu.edu.cn/ICEberg/", "institution": {"id": 1342, "name": "State Key Laboratory of Microbial Metabolism and School of Life Sciences &amp; Biotechnology, Shanghai Jiaotong University, Shanghai", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1344, "prefix": "vfdb.genus", "mirId": "MIR:00000471", "name": "VFDB Genus", "pattern": "^\\w+$", "description": "VFDB is a repository of virulence factors (VFs) of pathogenic bacteria.This collection references VF information by Genus.", "created": "2019-06-11T14:17:27.811+0000", "modified": "2019-06-11T14:17:27.811+0000", "resources": [{"id": 1346, "mirId": "MIR:00100606", "urlPattern": "http://www.mgc.ac.cn/cgi-bin/VFs/genus.cgi?Genus={$id}", "name": "VFDB Genus at Institute of Pathogen Biology", "description": "VFDB Genus at Institute of Pathogen Biology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Chlamydia", "resourceHomeUrl": "http://www.mgc.ac.cn/VFs/", "institution": {"id": 1345, "name": "State Key Laboratory for Molecular Virology and Genetic Engineering, Institute of Pathogen Biology, Chinese Academy Medical Sciences and Peking Union Medical College, Beijing", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Chlamydia", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1347, "prefix": "vfdb.gene", "mirId": "MIR:00000472", "name": "VFDB Gene", "pattern": "^\\w+$", "description": "VFDB is a repository of virulence factors (VFs) of pathogenic bacteria.This collection references VF genes.", "created": "2019-06-11T14:17:28.027+0000", "modified": "2019-06-11T14:17:28.027+0000", "resources": [{"id": 1348, "mirId": "MIR:00100607", "urlPattern": "http://www.mgc.ac.cn/cgi-bin/VFs/gene.cgi?GeneID={$id}", "name": "VFDB Gene at Institute of Pathogen Biology", "description": "VFDB Gene at Institute of Pathogen Biology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "VFG2154", "resourceHomeUrl": "http://www.mgc.ac.cn/VFs/", "institution": {"id": 1345, "name": "State Key Laboratory for Molecular Virology and Genetic Engineering, Institute of Pathogen Biology, Chinese Academy Medical Sciences and Peking Union Medical College, Beijing", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "VFG2154", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1349, "prefix": "mesh.2013", "mirId": "MIR:00000473", "name": "MeSH 2013", "pattern": "^[A-Za-z0-9]+$", "description": "MeSH (Medical Subject Headings) is the National Library of Medicine's controlled vocabulary thesaurus. 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This kind of personnel is required not only in medicine, but also in other technical fields such as agricultural sciences, pharmaceutical sciences, environmental studies and biotechnology.", "rorId": null, "location": {"countryCode": "JP", "countryName": "Japan"}}, "location": {"countryCode": "JP", "countryName": "Japan"}, "deprecated": false, "deprecationDate": null}], "sampleId": "M00002", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1353, "prefix": "kegg.disease", "mirId": "MIR:00000475", "name": "KEGG Disease", "pattern": "^H\\d+$", "description": "The KEGG DISEASE database is a collection of disease entries capturing knowledge on genetic and environmental perturbations. Each disease entry contains a list of known genetic factors (disease genes), environmental factors, diagnostic markers, and therapeutic drugs. 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This collection references 'Datasets'.", "created": "2019-06-11T14:17:37.233+0000", "modified": "2019-06-11T14:17:37.233+0000", "resources": [{"id": 1445, "mirId": "MIR:00100658", "urlPattern": "https://www.ebi.ac.uk/ega/datasets/{$id}", "name": "EGA Dataset at European Bioinformatics Institute", "description": "EGA Dataset at European Bioinformatics Institute", "official": true, "providerCode": "ebi", "sampleId": "EGAD00000000001", "resourceHomeUrl": "https://www.ebi.ac.uk/ega/dataset", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}, {"id": 1446, "mirId": "MIR:00100852", "urlPattern": "https://www.omicsdi.org/dataset/ega/{$id}", "name": "EGA Dataset through OmicsDI", "description": "EGA Dataset through OmicsDI", "official": false, "providerCode": "omicsdi", "sampleId": "EGAD00000000001", "resourceHomeUrl": "https://www.omicsdi.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EGAD00000000001", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1453, "prefix": "pride.project", "mirId": "MIR:00000515", "name": "PRIDE Project", "pattern": "^P(X|R)D\\d{6}$", "description": "The PRIDE PRoteomics IDEntifications database is a centralized, standards compliant, public data repository that provides protein and peptide identifications together with supporting evidence. This collection references projects.", "created": "2019-06-11T14:17:38.030+0000", "modified": "2019-06-11T14:17:38.030+0000", "resources": [{"id": 1454, "mirId": "MIR:00100662", "urlPattern": "https://www.ebi.ac.uk/pride/archive/projects/{$id}", "name": "PRIDE Project at EBI", "description": "PRIDE Project at EBI", "official": true, "providerCode": "ebi", "sampleId": "PXD000440", "resourceHomeUrl": "https://www.ebi.ac.uk/pride/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}, {"id": 1455, "mirId": "MIR:00100858", "urlPattern": "https://www.omicsdi.org/dataset/pride/{$id}", "name": "PRIDE Project through OmicsDI", "description": "PRIDE Project through OmicsDI", "official": false, "providerCode": "omicsdi", "sampleId": "PXD000440", "resourceHomeUrl": "https://www.omicsdi.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "PXD000440", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1456, "prefix": "antibodyregistry", "mirId": "MIR:00000516", "name": "Antibody Registry", "pattern": "^\\d{6}$", "description": "The Antibody Registry provides identifiers for antibodies used in publications. It lists commercial antibodies from numerous vendors, each assigned with a unique identifier. Unlisted antibodies can be submitted by providing the catalog number and vendor information.", "created": "2019-06-11T14:17:38.379+0000", "modified": "2019-06-11T14:17:38.379+0000", "resources": [{"id": 1458, "mirId": "MIR:00100664", "urlPattern": "http://antibodyregistry.org/AB_{$id}", "name": "Antibody Registry at University of California", "description": "Antibody Registry at University of California", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "493771", "resourceHomeUrl": "http://antibodyregistry.org/", "institution": {"id": 1457, "name": "Neuroscience Information Framework, University of California, San Diego, California", "homeUrl": "https://neuinfo.org/", "description": "The Neuroscience Information Framework is a dynamic inventory of Web-based neuroscience resources: data, materials, and tools accessible via any computer connected.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "493771", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1459, "prefix": "mamo", "mirId": "MIR:00000517", "name": "Mathematical Modelling Ontology", "pattern": "^MAMO_\\d{7}$", "description": "The Mathematical Modelling Ontology (MAMO) is a classification of the types of mathematical models used mostly in the life sciences, their variables, relationships and other relevant features.", "created": "2019-06-11T14:17:38.625+0000", "modified": "2019-06-11T14:17:38.625+0000", "resources": [{"id": 1460, "mirId": "MIR:00100665", "urlPattern": "http://bioportal.bioontology.org/ontologies/MAMO/?p=classes&conceptid=http://identifiers.org/mamo/{$id}", "name": "MAMO through BioPortal", "description": "MAMO through BioPortal", "official": false, "providerCode": "bptl", "sampleId": "MAMO_0000026", "resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/MAMO", "institution": {"id": 5, "name": "National Center for Biomedical Ontology, Stanford", "homeUrl": "https://ncbo.bioontology.org/", "description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 1461, "mirId": "MIR:00100758", "urlPattern": "https://www.ebi.ac.uk/ols/ontologies/mamo/terms?short_form={$id}", "name": "MaMO through OLS", "description": "MaMO through OLS", "official": false, "providerCode": "ols", "sampleId": "MAMO_0000026", "resourceHomeUrl": "https://www.ebi.ac.uk/ols/ontologies/mamo", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MAMO_0000026", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1462, "prefix": "eo", "mirId": "MIR:00000518", "name": "Plant Environment Ontology", "pattern": "^(P)?EO\\:\\d{7}$", "description": "The Plant Environment Ontology is a set of standardized controlled vocabularies to describe various types of treatments given to an individual plant / a population or a cultured tissue and/or cell type sample to evaluate the response on its exposure. It also includes the study types, where the terms can be used to identify the growth study facility. Each growth facility such as field study, growth chamber, green house etc is a environment on its own it may also involve instances of biotic and abiotic environments as supplemental treatments used in these studies.", "created": "2019-06-11T14:17:38.985+0000", "modified": "2019-06-11T14:17:38.985+0000", "resources": [{"id": 1463, "mirId": "MIR:00100667", "urlPattern": "http://archive.gramene.org/db/ontology/search?query=EO:{$id}", "name": "Plant Environment Ontology through Gramene", "description": "Plant Environment Ontology through Gramene", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "0007404", "resourceHomeUrl": "http://archive.gramene.org/db/ontology/search_term?id=EO:0007359", "institution": {"id": 556, "name": "Cold Spring Harbor Laboratory, New York", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 1464, "mirId": "MIR:00100668", "urlPattern": "http://purl.bioontology.org/ontology/PECO/EO:{$id}", "name": "Plant Environment Ontology through BioPortal", "description": "Plant Environment Ontology through BioPortal", "official": false, "providerCode": "bptl", "sampleId": "0007404", "resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/PECO", "institution": {"id": 5, "name": "National Center for Biomedical Ontology, Stanford", "homeUrl": "https://ncbo.bioontology.org/", "description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 1465, "mirId": "MIR:00100669", "urlPattern": "https://www.ebi.ac.uk/ols/ontologies/eo/terms?obo_id=EO:{$id}", "name": "Plant Environment Ontology through OLS", "description": "Plant Environment Ontology through OLS", "official": false, "providerCode": "ols", "sampleId": "0007404", "resourceHomeUrl": "https://www.ebi.ac.uk/ols/ontologies/eo", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0007404", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1466, "prefix": "idot", "mirId": "MIR:00000519", "name": "Identifiers.org Terms", "pattern": "^[A-Za-z]+$", "description": "Identifiers.org Terms (idot) is an RDF vocabulary providing useful terms for describing datasets.", "created": "2019-06-11T14:17:39.487+0000", "modified": "2019-06-11T14:17:39.487+0000", "resources": [{"id": 1467, "mirId": "MIR:00100670", "urlPattern": "https://biomodels.net/vocab/idot.rdf#{$id}", "name": "IdoT via biomodels.net", "description": "IdoT via biomodels.net", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "identifierPattern", "resourceHomeUrl": "https://identifiers.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "identifierPattern", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1470, "prefix": "yeastintron", "mirId": "MIR:00000521", "name": "Yeast Intron Database v4.3", "pattern": "^[A-Z0-9]+$", "description": "The YEast Intron Database (version 4.3) contains information on the spliceosomal introns of the yeast Saccharomyces cerevisiae. It includes expression data that relates to the efficiency of splicing relative to other processes in strains of yeast lacking nonessential splicing factors. The data are displayed on each intron page. This is an updated version of the previous dataset, which can be accessed through [MIR:00000460].", "created": "2019-06-11T14:17:39.906+0000", "modified": "2019-06-11T14:17:39.906+0000", "resources": [{"id": 1471, "mirId": "MIR:00100673", "urlPattern": "http://intron.ucsc.edu/cgi-bin/yeast4.3/intronreports.pl?outputformat=full&orfName={$id}", "name": "Yeast Intron Database version 4.3 at Baskin School of Engineering", "description": "Yeast Intron Database version 4.3 at Baskin School of Engineering", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "SNR17A", "resourceHomeUrl": "http://intron.ucsc.edu/yeast4.3/", "institution": {"id": 1319, "name": "University of California, Santa Cruz", "homeUrl": "https://www.ucsc.edu", "description": "UC Santa Cruz opened in 1965 with 650 students. During the 2018-2019 academic year, 16,983 undergraduate and 1,822 graduate students were enrolled.\n", "rorId": "https://ror.org/03s65by71", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "SNR17A", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1472, "prefix": "ardb", "mirId": "MIR:00000522", "name": "Antibiotic Resistance Genes Database", "pattern": "^[A-Z_]{3}[0-9]{4,}$", "description": "The Antibiotic Resistance Genes Database (ARDB) is a manually curated database which characterises genes involved in antibiotic resistance. Each gene and resistance type is annotated with information, including resistance profile, mechanism of action, ontology, COG and CDD annotations, as well as external links to sequence and protein databases. This collection references resistance genes.", "created": "2019-06-11T14:17:40.104+0000", "modified": "2019-06-11T14:17:40.104+0000", "resources": [{"id": 1474, "mirId": "MIR:00100678", "urlPattern": "http://ardb.cbcb.umd.edu/cgi/search.cgi?db=L&field=ni&term={$id}", "name": "ARDB at University of Maryland", "description": "ARDB at University of Maryland", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "CAE46076", "resourceHomeUrl": "http://ardb.cbcb.umd.edu/", "institution": {"id": 1473, "name": "Center for Bioinformatics and Computational Biology, University of Maryland, Maryland", "homeUrl": "https://www.cbcb.umd.edu/", "description": "The University of Maryland Center for Bioinformatics and Computational Biology is a multidisciplinary center dedicated to research on questions arising from the genome revolution. CBCB brings together scientists and engineers from many fields, including computer science, molecular biology, genomics, genetics, mathematics, statistics, and physics, all of whom share a common interest in gaining a better understanding of how life works. The Center for Bioinformatics and Computational Biology is organized as a center within the University of Maryland Institute for Advanced Computer Studies (UMIACS), an interdisciplinary research institute supporting high-impact computing research across the College Park campus. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "CAE46076", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1475, "prefix": "proteomicsdb.protein", "mirId": "MIR:00000524", "name": "ProteomicsDB Protein", "pattern": "^\\d+$", "description": "ProteomicsDB is an effort dedicated to expedite the identification of the human proteome and its use across the scientific community. This human proteome data is assembled primarily using information from liquid chromatography tandem-mass-spectrometry (LC-MS/MS) experiments involving human tissues, cell lines and body fluids. Information is accessible for individual proteins, or on the basis of protein coverage on the encoding chromosome, and for peptide components of a protein. This collection provides access to individual proteins.", "created": "2019-06-11T14:17:40.344+0000", "modified": "2019-06-11T14:17:40.344+0000", "resources": [{"id": 1477, "mirId": "MIR:00100680", "urlPattern": "https://www.proteomicsdb.org/#human/proteinDetails/{$id}/summary", "name": "Proteomics DB Protein at Center for Integrated Protein Science", "description": "Proteomics DB Protein at Center for Integrated Protein Science", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "53504", "resourceHomeUrl": "https://www.proteomicsdb.org/#human", "institution": {"id": 1476, "name": "Center for Integrated Protein Science, Munich,", "homeUrl": "https://www.cipsm.de/", "description": "CIPSM brings together internationally recognized scientists in the Munich area from the two leading Universities in Germany, LMU, and TUM, as well as from the neighboring Max Planck Institutes and the Helmholtz society. CISPM forms an umbrella under which the individual research facilities can develop their expertise jointly to form a center of scientific gravity in southern Germany. The Center will strengthen existing expertise by hiring new research groups to work on complementary aspects. These measures will catalyze the transition from classical protein science scattered over the Munich region to a new systemic protein science that is expected to dominate research in the molecular life sciences beyond the funding period.", "rorId": null, "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "53504", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1478, "prefix": "proteomicsdb.peptide", "mirId": "MIR:00000525", "name": "ProteomicsDB Peptide", "pattern": "^\\d+$", "description": "ProteomicsDB is an effort dedicated to expedite the identification of the human proteome and its use across the scientific community. This human proteome data is assembled primarily using information from liquid chromatography tandem-mass-spectrometry (LC-MS/MS) experiments involving human tissues, cell lines and body fluids. Information is accessible for individual proteins, or on the basis of protein coverage on the encoding chromosome, and for peptide components of a protein. This collection provides access to the peptides identified for a given protein.", "created": "2019-06-11T14:17:40.583+0000", "modified": "2019-06-11T14:17:40.583+0000", "resources": [{"id": 1480, "mirId": "MIR:00100681", "urlPattern": "https://www.proteomicsdb.org/#human/proteinDetails/{$id}/peptides/", "name": "Proteomics DB Peptide at Center for Integrated Protein Science", "description": "Proteomics DB Peptide at Center for Integrated Protein Science", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "53504", "resourceHomeUrl": "https://www.proteomicsdb.org/#peptideSearch", "institution": {"id": 1479, "name": "Center for Integrated Protein Science, Munich", "homeUrl": "https://www.cipsm.de/", "description": "CIPSM brings together internationally recognized scientists in the Munich area from the two leading Universities in Germany, LMU, and TUM, as well as from the neighboring Max Planck Institutes and the Helmholtz society. CISPM forms an umbrella under which the individual research facilities can develop their expertise jointly to form a center of scientific gravity in southern Germany. The Center will strengthen existing expertise by hiring new research groups to work on complementary aspects. These measures will catalyze the transition from classical protein science scattered over the Munich region to a new systemic protein science that is expected to dominate research in the molecular life sciences beyond the funding period.", "rorId": "https://ror.org/032hzb643", "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "53504", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1481, "prefix": "hpm.protein", "mirId": "MIR:00000526", "name": "Human Proteome Map Protein", "pattern": "^\\d+$", "description": "The Human Proteome Map (HPM) portal integrates the peptide sequencing result from the draft map of the human proteome project. The project was based on LC-MS/MS by utilizing of high resolution and high accuracy Fourier transform mass spectrometry. The HPM contains direct evidence of translation of a number of protein products derived from human genes, based on peptide identifications of multiple organs/tissues and cell types from individuals with clinically defined healthy tissues. The HPM portal provides data on individual proteins, as well as on individual peptide spectra. This collection references proteins.", "created": "2019-06-11T14:17:40.825+0000", "modified": "2019-06-11T14:17:40.825+0000", "resources": [{"id": 1482, "mirId": "MIR:00100682", "urlPattern": "http://www.humanproteomemap.org/protein.php?hpm_id={$id}", "name": "Human Proteome Map Protein at Institute of Bioinformatics (Bangalore)", "description": "Human Proteome Map Protein at Institute of Bioinformatics (Bangalore)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1968", "resourceHomeUrl": "http://www.humanproteomemap.org/index.php", "institution": {"id": 1087, "name": "Institute of Bioinformatics, International Tech Park, Bangalore", "homeUrl": "http://www.ibioinformatics.org/", "description": "The Institute of Bioinformatics is a not-for-profit organization engaged in research in Bioinformatics. This institute is located in Bangalore, India and was established in May 2002. Bangalore is a prime center for research and development and is the hub of information technology in India. The Institute of Bioinformatics emphasizes cutting edge research in Databases, Computational Genomics, Proteomics Comparative Genomics, Metabolomics and Lipidomics. The initial goal of this Institute was to create a freely available Human Protein Reference Database using open source technologies and to experimentally verify predicted human genes using molecular biology and proteomics-based methods.", "rorId": "https://ror.org/04hqfvm50", "location": {"countryCode": "IN", "countryName": "India"}}, "location": {"countryCode": "IN", "countryName": "India"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1968", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1483, "prefix": "hpm.peptide", "mirId": "MIR:00000527", "name": "Human Proteome Map Peptide", "pattern": "^\\d+$", "description": "The Human Proteome Map (HPM) portal integrates the peptide sequencing result from the draft map of the human proteome project. The project was based on LC-MS/MS by utilizing of high resolution and high accuracy Fourier transform mass spectrometry. The HPM contains direct evidence of translation of a number of protein products derived from human genes, based on peptide identifications of multiple organs/tissues and cell types from individuals with clinically defined healthy tissues. The HPM portal provides data on individual proteins, as well as on individual peptide spectra. This collection references individual peptides through spectra.", "created": "2019-06-11T14:17:41.032+0000", "modified": "2019-06-11T14:17:41.032+0000", "resources": [{"id": 1484, "mirId": "MIR:00100683", "urlPattern": "http://www.humanproteomemap.org/spectrum.php?pep_id={$id}", "name": "Human Proteome Map Peptide at Institute of Bioinformatics (Bangalore)", "description": "Human Proteome Map Peptide at Institute of Bioinformatics (Bangalore)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "9606117", "resourceHomeUrl": "http://www.humanproteomemap.org/index.php", "institution": {"id": 1087, "name": "Institute of Bioinformatics, International Tech Park, Bangalore", "homeUrl": "http://www.ibioinformatics.org/", "description": "The Institute of Bioinformatics is a not-for-profit organization engaged in research in Bioinformatics. This institute is located in Bangalore, India and was established in May 2002. Bangalore is a prime center for research and development and is the hub of information technology in India. The Institute of Bioinformatics emphasizes cutting edge research in Databases, Computational Genomics, Proteomics Comparative Genomics, Metabolomics and Lipidomics. The initial goal of this Institute was to create a freely available Human Protein Reference Database using open source technologies and to experimentally verify predicted human genes using molecular biology and proteomics-based methods.", "rorId": "https://ror.org/04hqfvm50", "location": {"countryCode": "IN", "countryName": "India"}}, "location": {"countryCode": "IN", "countryName": "India"}, "deprecated": false, "deprecationDate": null}], "sampleId": "9606117", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1485, "prefix": "drugbankv4.target", "mirId": "MIR:00000528", "name": "DrugBank Target v4", "pattern": "^BE\\d{7}$", "description": "The DrugBank database is a bioinformatics and chemoinformatics resource that combines detailed drug (i.e. chemical, pharmacological and pharmaceutical) data with comprehensive drug target (i.e. sequence, structure, and pathway) information. This collection references target information from version 4 of the database.", "created": "2019-06-11T14:17:41.273+0000", "modified": "2019-06-11T14:17:41.273+0000", "resources": [{"id": 1487, "mirId": "MIR:00100687", "urlPattern": "http://www.drugbank.ca/biodb/bio_entities/{$id}", "name": "DrugBank Target information version 4", "description": "DrugBank Target information version 4", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "BE0000048", "resourceHomeUrl": "http://www.drugbank.ca/targets", "institution": {"id": 1486, "name": "Departments of Computing Science, Biological Sciences, University of Alberta", "homeUrl": "https://www.ualberta.ca/index.html", "description": "We are a Top 5 Canadian university and one of the Top 150 in the world. Find out what makes our student experience so rich, meaningful and life-changing.", "rorId": null, "location": {"countryCode": "CA", "countryName": "Canada"}}, "location": {"countryCode": "CA", "countryName": "Canada"}, "deprecated": false, "deprecationDate": null}], "sampleId": "BE0000048", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1488, "prefix": "zinc", "mirId": "MIR:00000529", "name": "ZINC", "pattern": "^(ZINC)?\\d+$", "description": "ZINC is a free public resource for ligand discovery. The database contains over twenty million commercially available molecules in biologically relevant representations that may be downloaded in popular ready-to-dock formats and subsets. The Web site enables searches by structure, biological activity, physical property, vendor, catalog number, name, and CAS number.", "created": "2019-06-11T14:17:41.559+0000", "modified": "2019-06-11T14:17:41.559+0000", "resources": [{"id": 1490, "mirId": "MIR:00100688", "urlPattern": "http://zinc15.docking.org/substances/{$id}", "name": "ZINC at University of California (San Francisco)", "description": "ZINC at University of California (San Francisco)", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "ZINC1084", "resourceHomeUrl": "http://zinc15.docking.org/", "institution": {"id": 1489, "name": "Shoichet Laboratory, Department of Pharmaceutical Chemistry, University of California, San Francisco", "homeUrl": "https://bkslab.org/home", "description": "The Shoichet lab seeks to bring chemical reagents to biology, combining computation and experiment. In a protein-centric approach, molecular docking, we discover new ligands that complement protein structures. Using a ligand-centric approach, we discover new targets for known drugs and reagents. A focus for both is the discovery of reagents to modulate G-Protein Coupled Receptors (GPCRs). ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ZINC1084", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1491, "prefix": "foodb.compound", "mirId": "MIR:00000530", "name": "FooDB Compound", "pattern": "^FDB\\d+$", "description": "FooDB is resource on food and its constituent compounds. It includes data on the compound\u2019s nomenclature, its description, information on its structure, chemical class, its physico-chemical data, its food source(s), its color, its aroma, its taste, its physiological effect, presumptive health effects (from published studies), and concentrations in various foods. This collection references compounds.", "created": "2019-06-11T14:17:41.796+0000", "modified": "2019-06-11T14:17:41.796+0000", "resources": [{"id": 1492, "mirId": "MIR:00100689", "urlPattern": "http://foodb.ca/compounds/{$id}", "name": "FooDB database of food additives at University of Alberta", "description": "FooDB database of food additives at University of Alberta", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "FDB002100", "resourceHomeUrl": "http://foodb.ca/foods", "institution": {"id": 334, "name": "University of Alberta", "homeUrl": "https://www.ualberta.ca", "description": "The University of Alberta in Edmonton is one of Canada's top teaching and research universities, with an international reputation for excellence across the humanities, sciences, creative arts, business, engineering and health sciences.", "rorId": "https://ror.org/0160cpw27", "location": {"countryCode": "CA", "countryName": "Canada"}}, "location": {"countryCode": "CA", "countryName": "Canada"}, "deprecated": false, "deprecationDate": null}], "sampleId": "FDB002100", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1493, "prefix": "unii", "mirId": "MIR:00000531", "name": "UNII", "pattern": "^[A-Z0-9]+$", "description": "The purpose of the joint FDA/USP Substance Registration System (SRS) is to support health information technology initiatives by generating unique ingredient identifiers (UNIIs) for substances in drugs, biologics, foods, and devices. The UNII is a non- proprietary, free, unique, unambiguous, non semantic, alphanumeric identifier based on a substance\u2019s molecular structure and/or descriptive information.", "created": "2019-06-11T14:17:41.988+0000", "modified": "2019-06-11T14:17:41.988+0000", "resources": [{"id": 1494, "mirId": "MIR:00100690", "urlPattern": "http://fdasis.nlm.nih.gov/srs/srsdirect.jsp?regno={$id}", "name": "UNII at U.S. Food and Drug Administration", "description": "UNII at U.S. Food and Drug Administration", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "3G6A5W338E", "resourceHomeUrl": "http://fdasis.nlm.nih.gov/srs/", "institution": {"id": 1238, "name": "U.S. Food and Drug Administration, Maryland", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 3441, "mirId": "MIR:00000990", "urlPattern": "https://precision.fda.gov/uniisearch/srs/unii/{$id}", "name": "United States Food and Drug Administration", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/034xvzb47' with Wikidata IDs [Q204711], and ISNI IDs [0000 0001 2243 3366]", "official": true, "providerCode": "fda", "sampleId": "3G6A5W338E", "resourceHomeUrl": "https://precision.fda.gov/uniisearch", "institution": {"id": 3440, "name": "United States Food and Drug Administration", "homeUrl": "https://www.fda.gov/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/034xvzb47' with Wikidata IDs [Q204711], and ISNI IDs [0000 0001 2243 3366]", "rorId": "https://ror.org/034xvzb47", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "3G6A5W338E", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1495, "prefix": "orphanet.ordo", "mirId": "MIR:00000532", "name": "Orphanet Rare Disease Ontology", "pattern": "^Orphanet(_|:)C?\\d+$", "description": "The Orphanet Rare Disease ontology (ORDO) is a structured vocabulary for rare diseases, capturing relationships between diseases, genes and other relevant features which will form a useful resource for the computational analysis of rare diseases.\r\nIt integrates a nosology (classification of rare diseases), relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, UMLS, MedDRA), databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) and classifications (ICD10).", "created": "2019-06-11T14:17:42.194+0000", "modified": "2019-06-11T14:17:42.194+0000", "resources": [{"id": 1496, "mirId": "MIR:00100705", "urlPattern": "https://www.ebi.ac.uk/ols/ontologies/ordo/terms?short_form={$id}", "name": "ORDO via OLS", "description": "ORDO via OLS", "official": true, "providerCode": "ols", "sampleId": "Orphanet_C023", "resourceHomeUrl": "https://www.ebi.ac.uk/ols/ontologies/ordo", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Orphanet_C023", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1497, "prefix": "psipar", "mirId": "MIR:00000533", "name": "Protein Affinity Reagents", "pattern": "^PAR:\\d+$", "description": "Protein Affinity Reagents (PSI-PAR) provides a structured controlled vocabulary for the annotation of experiments concerned with interactions, and interactor production methods. PAR is developed by the HUPO Proteomics Standards Initiative and contains the majority of the terms from the PSI-MI controlled vocabular, as well as additional terms.", "created": "2019-06-11T14:17:42.461+0000", "modified": "2019-06-11T14:17:42.461+0000", "resources": [{"id": 1498, "mirId": "MIR:00100709", "urlPattern": "https://www.ebi.ac.uk/ontology-lookup/?termId={$id}", "name": "Protein Affinity Reagents through OLS", "description": "Protein Affinity Reagents through OLS", "official": false, "providerCode": "ols", "sampleId": "PAR:0116", "resourceHomeUrl": "https://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=PAR", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "PAR:0116", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1499, "prefix": "clinvar.record", "mirId": "MIR:00000534", "name": "ClinVar Record", "pattern": "^RCV\\d+(\\.\\d+)?$", "description": "ClinVar archives reports of relationships among medically important variants and phenotypes. It records human variation, interpretations of the relationship specific variations to human health, and supporting evidence for each interpretation. Each ClinVar record (RCV identifier) represents an aggregated view of interpretations of the same variation and condition from one or more submitters. Submissions for individual variation/phenotype combinations (SCV identifier) are also collected and made available separately. This collection references the Record Report, based on RCV accession.", "created": "2019-06-11T14:17:42.685+0000", "modified": "2019-06-11T14:17:42.685+0000", "resources": [{"id": 1501, "mirId": "MIR:00100710", "urlPattern": "http://www.ncbi.nlm.nih.gov/clinvar/{$id}/", "name": "ClinVar Record at NCBI", "description": "ClinVar Record at NCBI", "official": false, "providerCode": "ncbi", "sampleId": "RCV000033555.3", "resourceHomeUrl": "http://www.ncbi.nlm.nih.gov/clinvar/", "institution": {"id": 26, "name": "National Center for Biotechnology Information", "homeUrl": "https://www.ncbi.nlm.nih.gov/", "description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.", "rorId": "https://ror.org/02meqm098", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "RCV000033555.3", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1502, "prefix": "mgnify.proj", "mirId": "MIR:00000535", "name": "MGnify Project", "pattern": "^[A-Z]+[0-9]+$", "description": "MGnify is a resource for the analysis and archiving of microbiome data to help determine the taxonomic diversity and functional & metabolic potential of environmental samples. Users can submit their own data for analysis or freely browse all of the analysed public datasets held within the repository. In addition, users can request analysis of any appropriate dataset within the European Nucleotide Archive (ENA). User-submitted or ENA-derived datasets can also be assembled on request, prior to analysis.", "created": "2019-06-11T14:17:42.938+0000", "modified": "2019-06-11T14:17:42.938+0000", "resources": [{"id": 1503, "mirId": "MIR:00100711", "urlPattern": "https://www.ebi.ac.uk/metagenomics/projects/{$id}", "name": "MGnify Project", "description": "MGnify Project", "official": false, "providerCode": "ebi", "sampleId": "ERP004492", "resourceHomeUrl": "https://www.ebi.ac.uk/metagenomics", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ERP004492", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1504, "prefix": "euclinicaltrials", "mirId": "MIR:00000536", "name": "EU Clinical Trials", "pattern": "^\\d{4}\\-\\d{6}\\-\\d{2}$", "description": "The EU Clinical Trials Register contains information on clinical trials conducted in the European Union (EU), or the European Economic Area (EEA) which started after 1 May 2004.\r\nIt also includes trials conducted outside these areas if they form part of a paediatric investigation plan (PIP), or are sponsored by a marketing authorisation holder, and involve the use of a medicine in the paediatric population.", "created": "2019-06-11T14:17:43.129+0000", "modified": "2019-06-11T14:17:43.129+0000", "resources": [{"id": 1506, "mirId": "MIR:00100712", "urlPattern": "https://www.clinicaltrialsregister.eu/ctr-search/search?query={$id}", "name": "EU Clinical Trials at European Medicines Agency", "description": "EU Clinical Trials at European Medicines Agency", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2008-005144-16", "resourceHomeUrl": "https://www.clinicaltrialsregister.eu/", "institution": {"id": 1505, "name": "European Medicines Agency", "homeUrl": "http://www.ema.europa.eu/ema/", "description": "EMA guarantees the scientific evaluation, supervision & safety monitoring of human & veterinary medicines in the EU.", "rorId": "https://ror.org/01z0wsw92", "location": {"countryCode": "NL", "countryName": "Netherlands"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2008-005144-16", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1507, "prefix": "google.patent", "mirId": "MIR:00000537", "name": "Google Patents", "pattern": "^[A-Z]{2}\\d+([A-Z])?$", "description": "Google Patents covers the entire collection of granted patents and published patent applications from the USPTO, EPO, and WIPO. US patent documents date back to 1790, EPO and WIPO to 1978. 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As a mechanism that protects new ideas and investments in innovation and creativity, the USPTO is at the cutting edge of the nation's technological progress and achievement.", "created": "2019-06-11T14:17:43.583+0000", "modified": "2019-06-11T14:17:43.583+0000", "resources": [{"id": 1512, "mirId": "MIR:00100715", "urlPattern": "http://patft.uspto.gov/netacgi/nph-Parser?Sect2=PTO1&Sect2=HITOFF&p=1&u=/netahtml/PTO/search-bool.html&r=1&f=G&l=50&d=PALL&RefSrch=yes&Query=PN/{$id}", "name": "USPTO patents at USPTO", "description": "USPTO patents at USPTO", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "4145692", "resourceHomeUrl": "http://patft.uspto.gov/netahtml/PTO/index.html", "institution": {"id": 1511, "name": "United States Patent and Trademark Office", "homeUrl": "https://www.uspto.gov/", "description": "The United States Patent and Trademark Office (USPTO) is the federal agency for granting U.S. patents and registering trademarks. In doing this, the USPTO fulfills the mandate of Article I, Section 8, Clause 8, of the Constitution that the legislative branch \"promote the Progress of Science and useful Arts, by securing for limited Times to Authors and Inventors the exclusive Right to their respective Writings and Discoveries.\" The USPTO registers trademarks based on the commerce clause of the Constitution (Article I, Section 8, Clause 3). Under this system of protection, American industry has flourished. New products have been invented, new uses for old ones discovered, and employment opportunities created for millions of Americans. The strength and vitality of the U.S. economy depends directly on effective mechanisms that protect new ideas and investments in innovation and creativity. The continued demand for patents and trademarks underscores the ingenuity of American inventors and entrepreneurs. The USPTO is at the cutting edge of the nation's technological progress and achievement.", "rorId": "https://ror.org/0114yjq47", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "4145692", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1513, "prefix": "cpc", "mirId": "MIR:00000539", "name": "Cooperative Patent Classification", "pattern": "^([A-H,Y]|[A-H, Y]\\d{2}|[A-H, Y]\\d{2}[A-Z]|[A-H, Y]\\d{2}[A-Z]\\d{1,3}|[A-H, Y]\\d{2}[A-Z]\\d{1,3}(\\/)?\\d{2,})$", "description": "The Cooperative Patent Classification (CPC) is a patent classification system, developed jointly by the European Patent Office (EPO) and the United States Patent and Trademark Office (USPTO). It is based on the previous European classification system (ECLA), which itself was a version of the International Patent Classification (IPC) system. The CPC patent classification system has been used by EPO and USPTO since 1st January, 2013.", "created": "2019-06-11T14:17:43.853+0000", "modified": "2019-06-11T14:17:43.853+0000", "resources": [{"id": 1515, "mirId": "MIR:00100716", "urlPattern": "https://worldwide.espacenet.com/classification?locale=en_EP#!/CPC={$id}", "name": "Cooperative Patent Classification at Espace", "description": "Cooperative Patent Classification at Espace", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "A01M1/026", "resourceHomeUrl": "https://worldwide.espacenet.com/classification", "institution": {"id": 1514, "name": "Espace, European Patent Office", "homeUrl": "https://worldwide.espacenet.com/", "description": " The Office's core activity is the search and examination of patent applications and the grant of European patents. We also provide patent information and training services. ", "rorId": "https://ror.org/016vvkz13", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "A01M1/026", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1516, "prefix": "gwascentral.study", "mirId": "MIR:00000540", "name": "GWAS Central Study", "pattern": "^HGVST\\d+$", "description": "GWAS Central (previously the Human Genome Variation database of Genotype-to-Phenotype information) is a database of summary level findings from genetic association studies, both large and small. It gathers datasets from public domain projects, and accepts direct data submission. It is based upon Marker information encompassing SNP and variant information from public databases, to which allele and genotype frequency data, and genetic association findings are additionally added. A Study (most generic level) contains one or more Experiments, one or more Sample Panels of test subjects, and one or more Phenotypes. This collection references a GWAS Central Study.", "created": "2019-06-11T14:17:44.062+0000", "modified": "2019-06-11T14:17:44.062+0000", "resources": [{"id": 1517, "mirId": "MIR:00100717", "urlPattern": "https://www.gwascentral.org/study/{$id}", "name": "GWAS Central Study at University of Leicester", "description": "GWAS Central Study at University of Leicester", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "HGVST1828", "resourceHomeUrl": "https://www.gwascentral.org/studies", "institution": {"id": 1079, "name": "Department of Genetics, University of Leicester, Leicester", "homeUrl": "https://le.ac.uk/ggb", "description": "We are an internationally-recognised centre for pioneering research into genetics with specific expertise in patterns of human inheritance, identification of genetic determinants of human diseases, cancer genetics, circadian rhythms and microbial pathogenesis. Our renowned research includes the discovery by Professor Sir Alec Jeffreys of the technique of DNA fingerprinting and, more recently, for the identification of the bones of Richard III. 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A Study (most generic level) contains one or more Experiments, one or more Sample Panels of test subjects, and one or more Phenotypes. 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We are proud of our cross-organism approach, which emphasises the fundamental importance of genetics as a common language for understanding the biology of organisms as diverse as bacteriophages, bacteria, yeast, fruit flies, insects, plants and humans.", "rorId": null, "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "HGVM15354", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1555, "prefix": "bigg.metabolite", "mirId": "MIR:00000556", "name": "BiGG Metabolite", "pattern": "^[a-z_A-Z0-9]+$", "description": "BiGG is a knowledgebase of Biochemically, Genetically and Genomically structured genome-scale metabolic network reconstructions. It more published genome-scale metabolic networks into a single database with a set of stardized identifiers called BiGG IDs. 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This collection references individual metabolotes.", "created": "2019-06-11T14:17:47.850+0000", "modified": "2019-06-11T14:17:47.850+0000", "resources": [{"id": 1556, "mirId": "MIR:00100733", "urlPattern": "http://bigg.ucsd.edu/models/universal/metabolites/{$id}", "name": "BiGG Metabolite at University of Cakifornia", "description": "BiGG Metabolite at University of Cakifornia", "official": false, "providerCode": "ucsd", "sampleId": "12dgr161", "resourceHomeUrl": "http://bigg.ucsd.edu/universal/metabolites", "institution": {"id": 190, "name": "University of California, San Diego", "homeUrl": "https://ucsd.edu/", "description": "is a public research university in San Diego, California.\nEstablished in 1960 near the pre-existing Scripps Institution of Oceanography, UC San Diego is the seventh-oldest of the 10 University of California campuses and offers over 200 undergraduate and graduate degree programs, enrolling approximately 30,000 undergraduate and 8,500 graduate students.", "rorId": "https://ror.org/0168r3w48", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "12dgr161", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1525, "prefix": "lincs.cell", "mirId": "MIR:00000544", "name": "LINCS Cell", "pattern": "(^LCL-\\d+$)|(^LDC-\\d+$)|(^ES-\\d+$)|(^LSC-\\d+$)|(^LPC-\\d+$)", "description": "The Library of Network-Based Cellular Signatures (LINCS) Program aims to create a network-based understanding of biology by cataloging changes in gene expression and other cellular processes that occur when cells are exposed to a variety of perturbing agents. The LINCS cell model system can have the following cell categories: cell lines, primary cells, induced pluripotent stem cells, differentiated cells, and embryonic stem cells. The metadata contains information provided by each LINCS Data and Signature Generation Center (DSGC) and the association with a tissue or organ from which the cells were derived, in many cases are also associated to a disease.", "created": "2019-06-11T14:17:44.903+0000", "modified": "2019-06-11T14:17:44.903+0000", "resources": [{"id": 1527, "mirId": "MIR:00100721", "urlPattern": "http://lincsportal.ccs.miami.edu/cells/#/view/{$id}", "name": "LINCS Portal", "description": "LINCS Portal", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "LCL-2085", "resourceHomeUrl": "http://lincsportal.ccs.miami.edu/cells/", "institution": {"id": 1526, "name": "University of Miami, BD2K-LINCS DCIC", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "LCL-2085", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1528, "prefix": "lincs.protein", "mirId": "MIR:00000545", "name": "LINCS Protein", "pattern": "^\\d+$", "description": "The HMS LINCS Database currently contains information on experimental reagents (small molecule perturbagens, cells, and proteins). 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The small molecule metadata includes substance-specific batch information provided by each LINCS Data and Signature Generation Center (DSGC).", "created": "2019-06-11T14:17:45.396+0000", "modified": "2019-06-11T14:17:45.396+0000", "resources": [{"id": 1532, "mirId": "MIR:00100723", "urlPattern": "http://lincsportal.ccs.miami.edu/SmallMolecules/#/view/{$id}", "name": "LINCS Portal", "description": "LINCS Portal", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "LSM-6306", "resourceHomeUrl": "http://lincsportal.ccs.miami.edu/SmallMolecules/", "institution": {"id": 1531, "name": "University of Miami, BD2K-LINCS DCIC, USA", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "LSM-6306", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1533, "prefix": "exac.transcript", "mirId": "MIR:00000547", "name": "ExAC Transcript", "pattern": "^ENST\\d{11}$", "description": "The Exome Aggregation Consortium (ExAC) is a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. 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This collection references gene information.", "created": "2019-06-11T14:17:45.890+0000", "modified": "2019-06-11T14:17:45.890+0000", "resources": [{"id": 1536, "mirId": "MIR:00100725", "urlPattern": "http://exac.broadinstitute.org/gene/{$id}", "name": "ExAC Gene at Exome Aggregation Consortium", "description": "ExAC Gene at Exome Aggregation Consortium", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ENSG00000169174", "resourceHomeUrl": "http://exac.broadinstitute.org/", "institution": {"id": 1519, "name": "Exome Aggregation Consortium (ExAC), Cambridge, Massachusetts", "homeUrl": "https://exac.broadinstitute.org/", "description": "The Exome Aggregation Consortium (ExAC) was a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. 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This collection references compounds.", "created": "2019-06-11T14:17:46.612+0000", "modified": "2019-06-11T14:17:46.612+0000", "resources": [{"id": 1544, "mirId": "MIR:00100728", "urlPattern": "http://www.grenoble.prabi.fr/obiwarehouse/unipathway/upc?upid={$id}", "name": "UniPathway Compound at Swiss Institute of Bioinformatics (SIB)", "description": "UniPathway Compound at Swiss Institute of Bioinformatics (SIB)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "UPC04349", "resourceHomeUrl": "http://www.grenoble.prabi.fr/obiwarehouse/unipathway", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": true, "deprecationDate": "2019-10-01T12:10:54.792+0000"}], "sampleId": "UPC04349", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1545, "prefix": "seed", "mirId": "MIR:00000552", "name": "SEED Subsystem", "pattern": "^\\w+$", "description": "This cooperative effort, which includes Fellowship for Interpretation of Genomes (FIG), Argonne National Laboratory, and the University of Chicago, focuses on the development of the comparative genomics environment called the SEED. 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This collection references subsystems.", "created": "2019-06-11T14:17:46.875+0000", "modified": "2019-06-11T14:17:46.875+0000", "resources": [{"id": 1547, "mirId": "MIR:00100729", "urlPattern": "https://registry.identifiers.org/deprecation/resources/MIR:00100729/{$id}", "name": "SEED Subsystem at Argonne National Laboratory", "description": "SEED Subsystem at Argonne National Laboratory", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Biotin_biosynthesis", "resourceHomeUrl": "http://seed-viewer.theseed.org/seedviewer.cgi", "institution": {"id": 1546, "name": "Argonne National Laboratory", "homeUrl": "https://www.anl.gov", "description": "Argonne is a multidisciplinary science and engineering research center, where talented scientists and engineers work together to answer the biggest questions facing humanity, from how to obtain affordable clean energy to protecting ourselves and our environment.", "rorId": "https://ror.org/05gvnxz63", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": true, "deprecationDate": "2019-10-08T08:49:23.021+0000"}], "sampleId": "Biotin_biosynthesis", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1548, "prefix": "seed.compound", "mirId": "MIR:00000553", "name": "SEED Compound", "pattern": "^cpd\\d+$", "description": "This cooperative effort, which includes Fellowship for Interpretation of Genomes (FIG), Argonne National Laboratory, and the University of Chicago, focuses on the development of the comparative genomics environment called the SEED. 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This collection references subsystems.", "created": "2019-06-11T14:17:47.133+0000", "modified": "2019-06-11T14:17:47.133+0000", "resources": [{"id": 1549, "mirId": "MIR:00100730", "urlPattern": "http://modelseed.org/biochem/compounds/{$id}", "name": "SEED Compound at Argonne National Laboratory", "description": "SEED Compound at Argonne National Laboratory", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "cpd15380", "resourceHomeUrl": "http://modelseed.org/", "institution": {"id": 1546, "name": "Argonne National Laboratory", "homeUrl": "https://www.anl.gov", "description": "Argonne is a multidisciplinary science and engineering research center, where talented scientists and engineers work together to answer the biggest questions facing humanity, from how to obtain affordable clean energy to protecting ourselves and our environment.", "rorId": "https://ror.org/05gvnxz63", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "cpd15380", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1550, "prefix": "bigg.model", "mirId": "MIR:00000554", "name": "BiGG Model", "pattern": "^[a-z_A-Z0-9]+$", "description": "BiGG is a knowledgebase of Biochemically, Genetically and Genomically structured genome-scale metabolic network reconstructions. 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This collection references model compartments.", "created": "2019-06-11T14:17:47.621+0000", "modified": "2019-06-11T14:17:47.621+0000", "resources": [{"id": 1554, "mirId": "MIR:00100732", "urlPattern": "http://bigg.ucsd.edu/compartments/{$id}", "name": "BiGG Compartment at University of California", "description": "BiGG Compartment at University of California", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "c", "resourceHomeUrl": "http://bigg.ucsd.edu/compartments/", "institution": {"id": 190, "name": "University of California, San Diego", "homeUrl": "https://ucsd.edu/", "description": "is a public research university in San Diego, California.\nEstablished in 1960 near the pre-existing Scripps Institution of Oceanography, UC San Diego is the seventh-oldest of the 10 University of California campuses and offers over 200 undergraduate and graduate degree programs, enrolling approximately 30,000 undergraduate and 8,500 graduate students.", "rorId": "https://ror.org/0168r3w48", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "c", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1537, "prefix": "wikidata", "mirId": "MIR:00000549", "name": "Wikidata", "pattern": "^(Q|P)\\d+$", "description": "Wikidata is a collaboratively edited knowledge base operated by the Wikimedia Foundation. 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Vocabularies integrated in the UMLS Metathesaurus include the NCBI taxonomy, Gene Ontology, the Medical Subject Headings (MeSH), OMIM and the Digital Anatomist Symbolic Knowledge Base. UMLS concepts are not only inter-related, but may also be linked to external resources such as GenBank.", "created": "2019-06-11T14:17:48.502+0000", "modified": "2019-06-11T14:17:48.502+0000", "resources": [{"id": 1562, "mirId": "MIR:00100736", "urlPattern": "http://linkedlifedata.com/resource/umls/id/{$id}", "name": "Unified Medical Language System at LinkedLifeData", "description": "Unified Medical Language System at LinkedLifeData", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "C0021390", "resourceHomeUrl": "http://linkedlifedata.com/", "institution": {"id": 63, "name": "Linkedlifedata, Ontotext, Sofia", "homeUrl": "http://linkedlifedata.com/", "description": "Linked Life Data (LLD) is a data-as-a-service platform that provides access to 25 public biomedical databases through a single access point. The service allows writing of complex data analytical queries, answering complex bioinformatics questions such as 'give me all human genes located in Y-chromosome with the known molecular interactions'; simply navigate through the information, or export subsets like 'all approved drugs and their brand names'. ", "rorId": null, "location": {"countryCode": "BG", "countryName": "Bulgaria"}}, "location": {"countryCode": "BG", "countryName": "Bulgaria"}, "deprecated": false, "deprecationDate": null}], "sampleId": "C0021390", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1567, "prefix": "mirtarbase", "mirId": "MIR:00000562", "name": "miRTarBase", "pattern": "^MIRT\\d{6}$", "description": "miRTarBase is a database of miRNA-target interactions (MTIs), collected manually from relevant literature, following Natural Language Processing of the text to identify research articles related to functional studies of miRNAs. Generally, the collected MTIs are validated experimentally by reporter assay, western blot, microarray and next-generation sequencing experiments.", "created": "2019-06-11T14:17:49.171+0000", "modified": "2019-06-11T14:17:49.171+0000", "resources": [{"id": 1569, "mirId": "MIR:00100739", "urlPattern": "http://mirtarbase.mbc.nctu.edu.tw/php/detail.php?mirtid={$id}", "name": "miRTarBase at National Chiao Tung University", "description": "miRTarBase at National Chiao Tung University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "MIRT000002", "resourceHomeUrl": "http://mirtarbase.mbc.nctu.edu.tw/", "institution": {"id": 1568, "name": "Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu", "homeUrl": "http://bioinfo.nctu.edu.tw/", "description": "The NCTU Institute of Bioinformatics and Systems Biology carries out research in structural bioinformatics, systems biology (e.g. gene networks and metabolic pathways), drug discovery, biological databases and algorithms, molecular evolution, computational chemistry, and functional genomics. Supporting by National Science Council and Ministry of Education, the Institute has installed the sole Structural Bioinformatics and Computer-aided Drug Design Core Facilities. On average, each faculty publishes 5 papers/year and the sum of impact factor is over 20/year; and the grant is over 3,000,000/year. These Principle Investigators have produced renowned computational packages and databases: GEMDOCK, for drug design; 3D-BLAST, for a super fast structure database search; miRNAMap, genomic maps of microRNAs in mammalian genomes; and CELLO, for sub-cellular localization prediction.", "rorId": null, "location": {"countryCode": "TW", "countryName": "Taiwan, Province of China"}}, "location": {"countryCode": "TW", "countryName": "Taiwan, Province of China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MIRT000002", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1570, "prefix": "meddra", "mirId": "MIR:00000563", "name": "MedDRA", "pattern": "^\\d+$", "description": "The Medical Dictionary for Regulatory Activities (MedDRA) was developed by the International Council for Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use (ICH)to provide a standardised medical terminology to facilitate sharing of regulatory information internationally for medical products used by humans. It is used within regulatory processes, safety monitoring, as well as for marketing activities. Products covered by the scope of MedDRA include pharmaceuticals, biologics, vaccines and drug-device combination products. The MedDRA dictionary is organized by System Organ Class (SOC), divided into High-Level Group Terms (HLGT), High-Level Terms (HLT), Preferred Terms (PT) and finally into Lowest Level Terms (LLT).", "created": "2019-06-11T14:17:49.428+0000", "modified": "2019-06-11T14:17:49.428+0000", "resources": [{"id": 1571, "mirId": "MIR:00100740", "urlPattern": "http://purl.bioontology.org/ontology/MEDDRA/{$id}", "name": "MedDRA through BioPortal", "description": "MedDRA through BioPortal", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "10015919", "resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/MEDDRA", "institution": {"id": 5, "name": "National Center for Biomedical Ontology, Stanford", "homeUrl": "https://ncbo.bioontology.org/", "description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "10015919", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1572, "prefix": "dashr", "mirId": "MIR:00000564", "name": "DASHR", "pattern": "^(hsa-(let|mir)-\\w+(-\\w+)?)|(piR-\\d+)|(chr\\w+.tRNA\\d+-\\w+)|(chr\\w+.tRNA\\d+-\\w+-tRF\\d)|((SNORD|SNORA|ACA|HBII|HBI|U)(-)?\\w+)|(HY\\d\\+(-L\\d+)?)|((LSU|SSU|5S)(-rRNA_Hsa)?(-L\\d+)?)$", "description": "DASHR reports the annotation, expression and evidence for specific RNA processing (cleavage specificity scores/entropy) of human sncRNA genes, precursor and mature sncRNA products across different human tissues and cell types. DASHR integrates information from multiple existing annotation resources for small non-coding RNAs, including microRNAs (miRNAs), Piwi-interacting (piRNAs), small nuclear (snRNAs), nucleolar (snoRNAs), cytoplasmic (scRNAs), transfer (tRNAs), tRNA fragments (tRFs), and ribosomal RNAs (rRNAs). These datasets were obtained from non-diseased human tissues and cell types and were generated for studying or profiling small non-coding RNAs. This collection references RNA records.", "created": "2019-06-11T14:17:49.634+0000", "modified": "2019-06-11T14:17:49.634+0000", "resources": [{"id": 1574, "mirId": "MIR:00100741", "urlPattern": "http://lisanwanglab.org/DASHR/entry/{$id}", "name": "DASHR at University of Pennsylvania", "description": "DASHR at University of Pennsylvania", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "hsa-mir-200a", "resourceHomeUrl": "http://lisanwanglab.org/DASHR/", "institution": {"id": 1573, "name": "Department of Pathology and Laboratory Medicine, University of Pennsylvania, Philadelphia", "homeUrl": "https://pathology.med.upenn.edu/", "description": "Combining the full gamut of possible activities found within academic pathology departments, the Department has solidified its national reputation as one of the leading, fully integrated academic departments of its kind. It has also positioned itself at the crossroads of the intellectual life at Penn, as the home to many of the School of Medicine\u2019s centralized resource laboratories and with substantive ties to multiple centers, institutes, departments and other schools on campus.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "hsa-mir-200a", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1575, "prefix": "dashr.expression", "mirId": "MIR:00000565", "name": "DASHR expression", "pattern": "^(hsa-(let|mir)-\\w+(-\\w+)?)|(piR-\\d+)|(chr\\w+.tRNA\\d+-\\w+)|(chr\\w+.tRNA\\d+-\\w+-tRF\\d)|((SNORD|SNORA|ACA|HBII|HBI|U)(-)?\\w+)|(HY\\d\\+(-L\\d+)?)|((LSU|SSU|5S)(-rRNA_Hsa)?(-L\\d+)?)$", "description": "DASHR reports the annotation, expression and evidence for specific RNA processing (cleavage specificity scores/entropy) of human sncRNA genes, precursor and mature sncRNA products across different human tissues and cell types. 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This collection references RNA expression.", "created": "2019-06-11T14:17:49.866+0000", "modified": "2019-06-11T14:17:49.866+0000", "resources": [{"id": 1576, "mirId": "MIR:00100742", "urlPattern": "https://dashr1.lisanwanglab.org/entry/hsa-mir-200a#{$id}#exprPerTissueTable", "name": "DASHR expression at University of Pennsylvania", "description": "DASHR expression at University of Pennsylvania", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "hsa-mir-200a", "resourceHomeUrl": "https://dashr1.lisanwanglab.org/show-expression-table.php?start=0", "institution": {"id": 1573, "name": "Department of Pathology and Laboratory Medicine, University of Pennsylvania, Philadelphia", "homeUrl": "https://pathology.med.upenn.edu/", "description": "Combining the full gamut of possible activities found within academic pathology departments, the Department has solidified its national reputation as one of the leading, fully integrated academic departments of its kind. It has also positioned itself at the crossroads of the intellectual life at Penn, as the home to many of the School of Medicine\u2019s centralized resource laboratories and with substantive ties to multiple centers, institutes, departments and other schools on campus.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "hsa-mir-200a", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1577, "prefix": "splash", "mirId": "MIR:00000566", "name": "SPLASH", "pattern": "^splash\\d[A-Z-a-z0-9]-[A-Za-z0-9]+-[A-Za-z0-9]+$", "description": "The spectra hash code (SPLASH) is a unique and non-proprietary identifier for spectra, and is independent of how the spectra were acquired or processed. It can be easily calculated for a wide range of spectra, including Mass spectroscopy, infrared spectroscopy, ultraviolet and nuclear magnetic resonance.", "created": "2019-06-11T14:17:50.083+0000", "modified": "2019-06-11T14:17:50.083+0000", "resources": [{"id": 1579, "mirId": "MIR:00100746", "urlPattern": "http://mona.fiehnlab.ucdavis.edu/#/spectra/splash/{$id}", "name": "Mass Bank of North America (MoNA)", "description": "Mass Bank of North America (MoNA)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "splash10-0zq2000000-77302b0326a418630a84", "resourceHomeUrl": "http://mona.fiehnlab.ucdavis.edu/", "institution": {"id": 1578, "name": "University of California, Davis, California", "homeUrl": "https://www.ucdavis.edu/", "description": "UC Davis was founded in 1908 to serve the state of California. We do and we always will. And today, the seed that was planted those years ago has grown into one of the world\u2019s top universities. ", "rorId": "https://ror.org/05rrcem69", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "splash10-0zq2000000-77302b0326a418630a84", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1563, "prefix": "mesh", "mirId": "MIR:00000560", "name": "MeSH", "pattern": "^(C|D)\\d{6,9}$", "description": "MeSH (Medical Subject Headings) is the National Library of Medicine's controlled vocabulary thesaurus. It consists of sets of terms naming descriptors in a hierarchical structure that permits searching at various levels of specificity. 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This information undergoes a reconciliation process to minimise for discrepancies between different data sources, and makes the data accessible under a common namespace. This collection references chemical or metabolic components.", "created": "2019-06-11T14:17:50.332+0000", "modified": "2021-02-26T09:36:59.253+0000", "resources": [{"id": 1582, "mirId": "MIR:00100748", "urlPattern": "https://www.metanetx.org/chem_info/{$id}", "name": "MetaNetX chemical at SIB Swiss Institute of Bioinformatics", "description": "MetaNetX chemical at SIB Swiss Institute of Bioinformatics", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "MNXM1723", "resourceHomeUrl": "https://www.metanetx.org/", "institution": {"id": 1581, "name": "Vital-IT group, SIB Swiss Institute of Bioinformatics, Lausanne", "homeUrl": "https://www.vital-it.ch/", "description": "Vital-IT is a Competency Centre in Bioinformatics and Computational Biology that provides support and technological R&D for life science and clinical research in Switzerland and internationally.", "rorId": null, "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MNXM1723", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1583, "prefix": "metanetx.reaction", "mirId": "MIR:00000568", "name": "MetaNetX reaction", "pattern": "^(MNXR\\d+|EMPTY)$", "description": "MetaNetX/MNXref integrates various information from genome-scale metabolic network reconstructions such as information on reactions, metabolites and compartments. This information undergoes a reconciliation process to minimise for discrepancies between different data sources, and makes the data accessible under a common namespace. 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It covers a variety of techniques, including single-particle analysis, electron tomography, and electron (2D) crystallography. The EMDB map distribution format follows the CCP4 definition, which is widely recognized by software packages used by the structural biology community.", "created": "2019-06-11T14:17:48.947+0000", "modified": "2023-02-20T08:55:04.411+0000", "resources": [{"id": 1566, "mirId": "MIR:00100738", "urlPattern": "https://www.ebi.ac.uk/pdbe/entry/emdb/{$id}", "name": "EMDB at Protein Data Bank in Europe", "description": "EMDB at Protein Data Bank in Europe", "official": false, "providerCode": "ebi", "sampleId": "EMD-1001", "resourceHomeUrl": "https://www.ebi.ac.uk/pdbe/emdb/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EMD-1001", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1587, "prefix": "unipathway.reaction", "mirId": "MIR:00000570", "name": "UniPathway Reaction", "pattern": "^UCR\\d{5}$", "description": "UniPathway is a manually curated resource of enzyme-catalyzed and spontaneous chemical reactions. It provides a hierarchical representation of metabolic pathways and a controlled vocabulary for pathway annotation in UniProtKB. UniPathway data are cross-linked to existing metabolic resources such as ChEBI/Rhea, KEGG and MetaCyc. This collection references individual reactions.", "created": "2019-06-11T14:17:51.017+0000", "modified": "2019-06-11T14:17:51.017+0000", "resources": [{"id": 1588, "mirId": "MIR:00100752", "urlPattern": "http://www.grenoble.prabi.fr/obiwarehouse/unipathway/ucr?upid={$id}", "name": "UniPathway Reaction at Swiss Institute of Bioinformatics (SIB)", "description": "UniPathway Reaction at Swiss Institute of Bioinformatics (SIB)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "UCR00226", "resourceHomeUrl": "http://www.grenoble.prabi.fr/obiwarehouse/unipathway", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": true, "deprecationDate": "2019-10-01T12:11:20.049+0000"}], "sampleId": "UCR00226", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1589, "prefix": "hp", "mirId": "MIR:00000571", "name": "Human Phenotype Ontology", "pattern": "^HP:\\d{7}$", "description": "The Human Phenotype Ontology (HPO) aims to provide a standardized vocabulary of phenotypic abnormalities encountered in human disease. Each term in the HPO describes a phenotypic abnormality, such as atrial septal defect. The HPO is currently being developed using the medical literature, Orphanet, DECIPHER, and OMIM.", "created": "2019-06-11T14:17:51.237+0000", "modified": "2019-06-11T14:17:51.237+0000", "resources": [{"id": 1591, "mirId": "MIR:00100753", "urlPattern": "https://hpo.jax.org/app/browse/term/HP:{$id}", "name": "Human Phenotype Ontology at Institute for Medical Genetics and Human Genetics", "description": "Human Phenotype Ontology at Institute for Medical Genetics and Human Genetics", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "0000118", "resourceHomeUrl": "http://human-phenotype-ontology.github.io/", "institution": {"id": 1590, "name": "Institute for Medical Genetics and Human Genetics, Charit\u00e9-Universit\u00e4tsmedizin, Berlin", "homeUrl": "https://genetik.charite.de/en/", "description": "Medical genetics examines the origins and mechanisms of diseases caused by genetic disorders. Medical genetics connects basic research with clinical medicine and thereby allows for the application of findings when making predictive and preventive assessments. In addition to the standard methods used for diagnostics, medical genetics makes use of an increasing number of molecular genetic methods. The use of these methods enables us to identify an ever increasing number of genetic diseases. Molecular genetics exhibits an exceptional potential to assist us in the comprehension of the etiology and pathogenesis of diseases and will contribute to the development of novel therapeutic concepts.", "rorId": null, "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}, {"id": 1592, "mirId": "MIR:00100754", "urlPattern": "https://www.ebi.ac.uk/ols4/ontologies/hp/terms?obo_id=HP:{$id}", "name": "Human Phenotype Ontology through OLS", "description": "Human Phenotype Ontology through OLS", "official": false, "providerCode": "ols", "sampleId": "0000118", "resourceHomeUrl": "https://www.ebi.ac.uk/ols4/ontologies/hp", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0000118", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1593, "prefix": "sasbdb", "mirId": "MIR:00000572", "name": "SASBDB", "pattern": "^[Ss][Aa][Ss][A-Za-z0-9]{3}[0-9]$", "description": "Small Angle Scattering Biological Data Bank (SASBDB) is a curated repository for small angle X-ray scattering (SAXS) and neutron scattering (SANS) data and derived models. Small angle scattering (SAS) of X-ray and neutrons provides structural information on biological macromolecules in solution at a resolution of 1-2 nm. SASBDB provides freely accessible and downloadable experimental data, which are deposited together with the relevant experimental conditions, sample details, derived models and their fits to the data.", "created": "2019-06-11T14:17:51.650+0000", "modified": "2019-06-11T14:17:51.650+0000", "resources": [{"id": 1595, "mirId": "MIR:00100763", "urlPattern": "http://www.sasbdb.org/data/{$id}", "name": "SASBDB at European Molecular Biology Laboratory", "description": "SASBDB at European Molecular Biology Laboratory", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "SASDAX8", "resourceHomeUrl": "http://www.sasbdb.org/", "institution": {"id": 1594, "name": "European Molecular Biology Lab Hamburg Outstation", "homeUrl": "https://www.embl-hamburg.de", "description": "EMBL is an intergovernmental organisation specialising in basic research in the life sciences, funded by public research monies from more than 20 member states, including much of Europe and Israel, and two associate members, Argentina and Australia. 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The unit is situated on campus of the German Synchrotron Research Centre (DESY), which hosts leading facilities for synchrotron radiation (PETRA-III) and free electron lasers (FLASH and XFEL, under construction).", "rorId": "https://ror.org/050589e39", "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "SASDAX8", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1596, "prefix": "hgnc.genefamily", "mirId": "MIR:00000573", "name": "HGNC gene family", "pattern": "^\\d+$", "description": "The HGNC (HUGO Gene Nomenclature Committee) provides an approved gene name and symbol (short-form abbreviation) for each known human gene. All approved symbols are stored in the HGNC database, and each symbol is unique. 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DANDI will provide: 1) A cloud platform for neurophysiology data storage for the purposes of collaboration and dissemination of data; 2) Easy to use tools for neurophysiology data submission, visualization, and access in the archive; and 3) Standardized applications for data ingestion, visualization and processing, which facilitate adoption of NWB and other standards. These data will help scientists uncover and understand cellular level mechanisms of brain function. Scientists will study the formation of neural networks, how cells and networks enable functions such as learning and memory, and how these functions are disrupted in neurological disorders.", "official": true, "providerCode": "dandi", "sampleId": "000017", "resourceHomeUrl": "https://dandiarchive.org/", "institution": {"id": 2167, "name": "Massachusetts Institute of Technology", "homeUrl": "http://web.mit.edu/", "description": "Founded to accelerate the nation\u2019s industrial revolution, MIT is profoundly American. With ingenuity and drive, our graduates have invented fundamental technologies, launched new industries, and created millions of American jobs. At the same time, and without the slightest sense of contradiction, MIT is profoundly global(opens in new window). Our community gains tremendous strength as a magnet for talent from around the world. Through teaching, research, and innovation, MIT\u2019s exceptional community pursues its mission of service to the nation and the world.", "rorId": "https://ror.org/042nb2s44", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "000017", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3271, "prefix": "ror", "mirId": "MIR:00000961", "name": "ROR", "pattern": "^0[a-hj-km-np-tv-z|0-9]{6}[0-9]{2}$", "description": "ROR (Research Organization Registry) is a global, community-led registry\nof open persistent identifiers for research organizations. ROR is jointly\noperated by California Digital Library, Crossref, and Datacite.", "created": "2022-08-15T19:28:35.707+0000", "modified": "2022-08-18T13:14:34.725+0000", "resources": [{"id": 3272, "mirId": "MIR:00001056", "urlPattern": "https://ror.org/{$id}", "name": "ROR", "description": "ROR (Research Organization Registry) is a global, community-led registry of open persistent identifiers for research organizations. ", "official": true, "providerCode": "ror", "sampleId": "03yrm5c26", "resourceHomeUrl": "https://ror.org", "institution": {"id": 3270, "name": "California Digital Library", "homeUrl": "https://www.cdlib.org/", "description": "The CDL was founded by the University of California in 1997 to take advantage of emerging technologies that were transforming the way digital information was being published and accessed. Since then, in collaboration with the UC libraries and other partners, we assembled one of the world\u2019s largest digital research libraries and changed the ways that faculty, students, and researchers discover and access information.", "rorId": "", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "03yrm5c26", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3292, "prefix": "clb", "mirId": "MIR:00000964", "name": "ChecklistBank", "pattern": "^[0-9]+(LR)?$", "description": "ChecklistBank is an index and repository for taxonomic and nomenclatural datasets", "created": "2022-11-03T14:17:05.019+0000", "modified": "2022-11-03T14:17:05.019+0000", "resources": [{"id": 3293, "mirId": "MIR:00000963", "urlPattern": "https://www.checklistbank.org/dataset/{$id}", "name": "ChecklistBank", "description": "ChecklistBank at GBIF. Codeveloped with the Catalogue of Life", "official": true, "providerCode": "clb", "sampleId": "1010", "resourceHomeUrl": "https://www.checklistbank.org", "institution": {"id": 3291, "name": "Global Biodiversity Information Facility", "homeUrl": "https://www.gbif.org/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fjyn938' with Wikidata IDs [Q1531570], and no ISNI information", "rorId": "https://ror.org/05fjyn938", "location": {"countryCode": "DK", "countryName": "Denmark"}}, "location": {"countryCode": "DK", "countryName": "Denmark"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1010", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3298, "prefix": "drugcentral", "mirId": "MIR:00000966", "name": "DrugCentral", "pattern": "^[0-9]+$", "description": "DrugCentral (http://drugcentral.org) is an open-access online drug compendium. DrugCentral integrates structure, bioactivity, regulatory, pharmacologic actions and indications for active pharmaceutical ingredients approved by FDA and other regulatory agencies. Monitoring of regulatory agencies for new drugs approvals ensures the resource is up-to-date. DrugCentral integrates content for active ingredients with pharmaceutical formulations, indexing drugs and drug label annotations, complementing similar resources available online. Its complementarity with other online resources is facilitated by cross referencing to external resources. At the molecular level, DrugCentral bridges drug-target interactions with pharmacological action and indications. The integration with FDA drug labels enables text mining applications for drug adverse events and clinical trial information. Chemical structure overlap between DrugCentral and five online drug resources, and the overlap between DrugCentral FDA-approved drugs and their presence in four different chemical collections, are discussed. DrugCentral can be accessed via the web application or downloaded in relational database format.", "created": "2022-11-04T09:54:32.976+0000", "modified": "2022-11-04T09:54:32.976+0000", "resources": [{"id": 3299, "mirId": "MIR:00000965", "urlPattern": "https://drugcentral.org/drugcard/{$id}", "name": "University of New Mexico", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fs6jp91' with Wikidata IDs [Q1190812], and ISNI IDs [0000 0001 2188 8502]", "official": true, "providerCode": "drugcentral", "sampleId": "257", "resourceHomeUrl": "http://www.unm.edu/", "institution": {"id": 3297, "name": "University of New Mexico", "homeUrl": "http://www.unm.edu/", "description": "Founded in 1889 as New Mexico\u2019s flagship institution, The University of New Mexico now occupies nearly 800 acres near old Route 66 in the heart of Albuquerque, a metropolitan area of more than 900,000 people. 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The nationally recognized campus arboretum and the popular duck pond offer an outstanding botanical experience in the midst of one of New Mexico's great public open spaces.", "rorId": "https://ror.org/05fs6jp91", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "257", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3307, "prefix": "skm", "mirId": "MIR:00000968", "name": "Stress Knowledge Map", "pattern": "^rx[0-9]{5}$", "description": "Stress Knowledge Map (SKM, available at https://skm.nib.si) is a knowledge graph resulting from the integration of dispersed published information on plant molecular responses to biotic and abiotic stressors. ", "created": "2022-11-04T12:17:30.200+0000", "modified": "2022-11-04T12:17:30.200+0000", "resources": [{"id": 3308, "mirId": "MIR:00000967", "urlPattern": "https://skm.nib.si/api/pss/reactions?reaction_id={$id}&return_field=summary", "name": "National Institute of Biology", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/03s5t0r17' with no Wikidata information, and ISNI IDs [0000 0004 0637 0790]", "official": true, "providerCode": "skm", "sampleId": "rx00408", "resourceHomeUrl": "http://www.nib.si/eng/", "institution": {"id": 3306, "name": "National Institute of Biology", "homeUrl": "http://www.nib.si/eng/", "description": "With about 190 employees, National Institute of Biology (NIB) is one of the independent Public Research Institution for Life Sciences in Slovenia. The Institute was established by the Government of the Republic of Slovenia in 1960. The basic activity of the Institute has been and continues to be basic, developmental and applicative research in the fields of biotechnology, biophysics, biomedicine and system biology. ", "rorId": "https://ror.org/03s5t0r17", "location": {"countryCode": "SI", "countryName": "Slovenia"}}, "location": {"countryCode": "SI", "countryName": "Slovenia"}, "deprecated": false, "deprecationDate": null}], "sampleId": "rx00408", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3311, "prefix": "col", "mirId": "MIR:00000969", "name": "Catalogue of Life", "pattern": "^[23456789BCDFGHJKLMNPQRSTVWXYZ]{1,6}$", "description": "Identifier of a taxon or synonym in the Catalogue of Life", "created": "2022-11-04T13:50:22.141+0000", "modified": "2022-11-04T13:50:22.141+0000", "resources": [{"id": 3312, "mirId": "MIR:00000970", "urlPattern": "https://www.checklistbank.org/dataset/3LR/taxon/{$id}", "name": "ChecklistBank", "description": "ChecklistBank, an index and repository for taxonomic data, hosted at GBIF\n", "official": true, "providerCode": "clb", "sampleId": "4QHKG", "resourceHomeUrl": "https://www.checklistbank.org", "institution": {"id": 3291, "name": "Global Biodiversity Information Facility", "homeUrl": "https://www.gbif.org/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fjyn938' with Wikidata IDs [Q1531570], and no ISNI information", "rorId": "https://ror.org/05fjyn938", "location": {"countryCode": "DK", "countryName": "Denmark"}}, "location": {"countryCode": "DK", "countryName": "Denmark"}, "deprecated": false, "deprecationDate": null}, {"id": 3328, "mirId": "MIR:00000971", "urlPattern": "https://www.catalogueoflife.org/data/taxon/{$id}", "name": "Catalogue of Life (COL)", "description": "The Catalogue of Life website providing a view onto the latest release of the COL Checklist.", "official": false, "providerCode": "col", "sampleId": "4QHKG", "resourceHomeUrl": "https://www.catalogueoflife.org", "institution": {"id": 3291, "name": "Global Biodiversity Information Facility", "homeUrl": "https://www.gbif.org/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fjyn938' with Wikidata IDs [Q1531570], and no ISNI information", "rorId": "https://ror.org/05fjyn938", "location": {"countryCode": "DK", "countryName": "Denmark"}}, "location": {"countryCode": "DK", "countryName": "Denmark"}, "deprecated": false, "deprecationDate": null}], "sampleId": "4QHKG", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3355, "prefix": "sciflection", "mirId": "MIR:00000973", "name": "Sciflection", "pattern": "^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$", "description": "Sciflection is a public repository for experiments and associated spectra, usually uploaded from Electronic Lab Notebooks, shared under FAIR conditions", "created": "2022-11-29T12:03:56.649+0000", "modified": "2022-11-29T12:03:56.649+0000", "resources": [{"id": 3356, "mirId": "MIR:00000972", "urlPattern": "https://sciflection.com/{$id}", "name": "Sciformation Consulting GmbH", "description": "Sciformation develops scientific software and integrated lab management solutions, comprising of chemical & hazardous material inventory, electronic lab notebook, analytical data management, literature, device databases and ordering systems. 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The high level of integration helps to gather comprehensive data describing the experiments, i.e. which batches or machinery was employed.", "rorId": null, "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "5ede4273-b26c-4ea4-adb7-3ce294ab3397", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 765, "prefix": "combine.specifications", "mirId": "MIR:00000258", "name": "COMBINE specifications", "pattern": "^\\w+(\\-|\\.|\\w)*$", "description": "The 'COmputational Modeling in BIology' NEtwork (COMBINE) is an initiative to coordinate the development of the various community standards and formats for computational models, initially in Systems Biology and related fields. 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The PANTHER Pathway Component collection references specific classes of molecules that play the same mechanistic role within a pathway, across species. Pathway\r\ncomponents may be proteins, genes/DNA, RNA, or simple molecules. Where the identified component is a protein, DNA, or transcribed RNA, it is associated with protein sequences in the PANTHER protein family trees through manual curation.", "created": "2019-06-11T14:17:16.858+0000", "modified": "2023-01-04T16:32:41.267+0000", "resources": [{"id": 1218, "mirId": "MIR:00100545", "urlPattern": "http://www.pantherdb.org/pathway/pathCatDetail.do?clsAccession={$id}", "name": "PANTHER Pathway Component at USC (Los Angeles)", "description": "PANTHER Pathway Component at USC (Los Angeles)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "P00266", "resourceHomeUrl": "http://www.pantherdb.org/", "institution": {"id": 94, "name": "Keck School of Medicine, University of Southern California", "homeUrl": "https://www.keckmedicine.org/", "description": "Keck Medicine of USC is the University of Southern California\u2019s medical enterprise, one of only two university-based medical systems in the Los Angeles area. Keck Medicine combines academic excellence, world-class research and state-of-the-art facilities to provide highly specialized care for some of the most acute patients in the country. ", "rorId": "https://ror.org/01rq8ck58", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "P00266", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 341, "prefix": "genedb", "mirId": "MIR:00000106", "name": "GeneDB", "pattern": "^[\\w\\d\\.-]*$", "description": "GeneDB is a genome database for prokaryotic and eukaryotic organisms and provides a portal through which data generated by the \"Pathogen Genomics\" group at the Wellcome Trust Sanger Institute and other collaborating sequencing centres can be accessed.", "created": "2019-06-11T14:16:00.951+0000", "modified": "2023-01-05T20:09:01.371+0000", "resources": [{"id": 343, "mirId": "MIR:00100139", "urlPattern": "https://www.genedb.org/gene/{$id}", "name": "GeneDB at Sanger Institute", "description": "GeneDB at Sanger Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "LinJ.20.0070", "resourceHomeUrl": "https://www.genedb.org/", "institution": {"id": 342, "name": "Pathogen Genomics, Sanger Institute and European Bioinformatics Institute", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "LinJ.20.0070", "namespaceEmbeddedInLui": false, "deprecated": true, "deprecationDate": "2023-01-05T20:09:01.370+0000"}, {"id": 220, "prefix": "mge", "mirId": "MIR:00000063", "name": "Aclame", "pattern": "^mge:\\d+$", "description": "ACLAME is a database dedicated to the collection and classification of mobile genetic elements (MGEs) from various sources, comprising all known phage genomes, plasmids and transposons.", "created": "2019-06-11T14:15:49.786+0000", "modified": "2023-01-10T13:18:19.511+0000", "resources": [{"id": 222, "mirId": "MIR:00100091", "urlPattern": "http://aclame.ulb.ac.be/perl/Aclame/Genomes/mge_view.cgi?view=info&id=mge:{$id}", "name": "Aclame database of mobile genetic elements", "description": "Aclame database of mobile genetic elements", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2", "resourceHomeUrl": "http://aclame.ulb.ac.be/", "institution": {"id": 221, "name": "Service de Conformation de Macromol\u00e9cules Biologiques et de Bioinformatique, Universit\u00e9 Libre de Bruxelles", "homeUrl": "https://www.ulb.be/", "description": " Four scientific Nobel Prizes, one Fields Medal, three Wolf Prizes are further evidence of the University's longstanding tradition of excellence. The Universit\u00e9 libre de Bruxelles is an active member of the Research Area: ULB has received HR Excellence in Research award from the EU (EURAXESS) and also EU funding to hire post-doctoral researchers (COFUND program), for example. Over the past few years, it has obtained 49 Grants (24 Starting, 12 Consolidator, 11 Advanced, 1 Synergy and 1 Proof of Concept Grants) from the European Research Area (ERC) to finance research in Medicine, Mathematics, Political Science, Economics, Physics, etc. In addition, the University's Institute for European Studies is recognized as a \u201cJean Monnet European research centre\u201d for its work on European integration.", "rorId": null, "location": {"countryCode": "BE", "countryName": "Belgium"}}, "location": {"countryCode": "BE", "countryName": "Belgium"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2", "namespaceEmbeddedInLui": true, "deprecated": true, "deprecationDate": "2023-01-10T13:18:19.506+0000"}, {"id": 2484, "prefix": "oma.hog", "mirId": "MIR:00000785", "name": "OMA HOGs", "pattern": "^HOG:[0-9]{7}(\\.[0-9a-z.]+)?(_[0-9]+)?$", "description": "Hierarchical orthologous groups predicted by OMA (Orthologous MAtrix) database. 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We project a future-\u200b\u200boriented and innovative image of Switzerland to the world and network our country with the global community. Together with our partners from science, business, politics and society, we rely on the power of teamwork and strive for excellence - in everything we do.", "rorId": "https://ror.org/05a28rw58", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0459895", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1437, "prefix": "gro", "mirId": "MIR:00000508", "name": "Gramene Growth Stage Ontology", "pattern": "^GRO:\\d+$", "description": "Gramene is a comparative genome mapping database for grasses and crop plants. It combines a semi-automatically generated database of cereal genomic and expressed sequence tag sequences, genetic maps, map relations, quantitative trait loci (QTL), and publications, with a curated database of mutants (genes and alleles), molecular markers, and proteins. This collection refers to growth stage ontology information in Gramene.", "created": "2019-06-11T14:17:36.384+0000", "modified": "2023-01-10T16:08:16.467+0000", "resources": [{"id": 1438, "mirId": "MIR:00100649", "urlPattern": "http://www.gramene.org/db/ontology/search?id=GRO:{$id}", "name": "Gramene Growth Stage Ontology at Cold Spring Harbor", "description": "Gramene Growth Stage Ontology at Cold Spring Harbor", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "0007133", "resourceHomeUrl": "http://www.gramene.org/", "institution": {"id": 556, "name": "Cold Spring Harbor Laboratory, New York", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0007133", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 3369, "prefix": "tair.name", "mirId": "MIR:00000976", "name": "TAIR gene name", "pattern": "^AT.G[0-9]{5}$", "description": "The Arabidopsis Information Resource (TAIR) maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana. 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", "rorId": "https://ror.org/01rq8ck58", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "PTN000000026", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1076, "prefix": "ccds", "mirId": "MIR:00000375", "name": "Consensus CDS", "pattern": "^CCDS\\d+\\.\\d+$", "description": "The Consensus CDS (CCDS) project is a collaborative effort to identify a core set of human and mouse protein coding regions that are consistently annotated and of high quality. The CCDS set is calculated following coordinated whole genome annotation updates carried out by the NCBI, WTSI, and Ensembl. 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This collection references gene information.", "created": "2019-06-11T14:17:14.975+0000", "modified": "2019-06-11T14:17:14.975+0000", "resources": [{"id": 1197, "mirId": "MIR:00100534", "urlPattern": "http://www.aspergillusgenome.org/cgi-bin/locus.pl?dbid={$id}", "name": "AspGD at Stanford Medical School", "description": "AspGD at Stanford Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ASPL0000349247", "resourceHomeUrl": "http://www.aspgd.org/", "institution": {"id": 1196, "name": "Department of Genetics, Stanford University Medical School, Stanford, California", "homeUrl": "https://med.stanford.edu/genetics.html", "description": "A leader in the biomedical revolution, Stanford Medicine has a long tradition of leadership in pioneering research, creative teaching protocols and effective clinical therapies.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ASPL0000349247", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1198, "prefix": "aspgd.protein", "mirId": "MIR:00000413", "name": "AspGD Protein", "pattern": "^[A-Za-z_0-9]+$", "description": "The Aspergillus Genome Database (AspGD) is a repository for information relating to fungi of the genus Aspergillus, which includes organisms of clinical, agricultural and industrial importance. 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This collection references protein information.", "created": "2019-06-11T14:17:15.227+0000", "modified": "2019-06-11T14:17:15.227+0000", "resources": [{"id": 1199, "mirId": "MIR:00100535", "urlPattern": "http://www.aspergillusgenome.org/cgi-bin/protein/proteinPage.pl?dbid={$id}", "name": "AspGD Protein at Stanford Medical School", "description": "AspGD Protein at Stanford Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ASPL0000349247", "resourceHomeUrl": "http://www.aspgd.org/", "institution": {"id": 1196, "name": "Department of Genetics, Stanford University Medical School, Stanford, California", "homeUrl": "https://med.stanford.edu/genetics.html", "description": "A leader in the biomedical revolution, Stanford Medicine has a long tradition of leadership in pioneering research, creative teaching protocols and effective clinical therapies.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ASPL0000349247", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1237, "prefix": "ndc", "mirId": "MIR:00000431", "name": "National Drug Code", "pattern": "^\\d+\\-\\d+\\-\\d+", "description": "The National Drug Code (NDC) is a unique, three-segment number used by the Food and Drug Administration (FDA) to identify drug products for commercial use. 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It provides an annotated list of ASD candidate genes in the form of reference dataset for interrogating molecular mechanisms underlying the disorder.", "created": "2019-06-11T14:17:15.426+0000", "modified": "2019-06-11T14:17:15.426+0000", "resources": [{"id": 1202, "mirId": "MIR:00100538", "urlPattern": "http://autism.mindspec.org/GeneDetail/{$id}", "name": "AutDB at MindSpec", "description": "AutDB at MindSpec", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ADA", "resourceHomeUrl": "http://autism.mindspec.org/autdb/", "institution": {"id": 1201, "name": "MindSpec Inc., Fairfax, Virginia", "homeUrl": "http://www.mindspec.org/", "description": "Our core mission at MindSpec, a 501(c)(3) non profit organization, is to advance research on neurodevelopmental conditions. Founded in 2006, MindSpec is an independent, non-profit research organization established to facilitate the discovery of a cure for autism. 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All bacterial genome maps are supplemented with separate prophage genome maps as well as separate tRNA and rRNA maps. Each bacterial chromosome entry in BacMap contains graphs and tables on a variety of gene and protein statistics. Likewise, every bacterial species entry contains a bacterial 'biography' card, with taxonomic details, phenotypic details, textual descriptions and images. 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Since metabolites often cannot be obtained in their respective native biological state, for example organic acids may be only acquirable as salts, the concept of reference substance was introduced. 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Phosphatase and substrate entries are listed along with the dephosphorylation site, bioassay type, and original literature, and contain links to other resources.", "created": "2019-06-11T14:17:18.034+0000", "modified": "2019-06-11T14:17:18.034+0000", "resources": [{"id": 1231, "mirId": "MIR:00100551", "urlPattern": "http://www.depod.bioss.uni-freiburg.de/showp.php?gene={$id}", "name": "DEPOD at EMBL", "description": "DEPOD at EMBL", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "PTPN1", "resourceHomeUrl": "http://www.depod.bioss.uni-freiburg.de", "institution": {"id": 1230, "name": "European Molecular Biology Laboratory EMBL, Heidelberg", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "PTPN1", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1232, "prefix": "cst", "mirId": "MIR:00000429", "name": "Cell Signaling Technology Pathways", "pattern": "^[A-Za-z0-9_-]+$", "description": "Cell Signaling Technology is a commercial organisation which provides a pathway portal to showcase their phospho-antibody products. 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This collection references locus information.", "created": "2019-06-11T14:17:19.049+0000", "modified": "2019-06-11T14:17:19.049+0000", "resources": [{"id": 1243, "mirId": "MIR:00100556", "urlPattern": "http://www.phytozome.net/genePage.php?crown&method=0&search=1&detail=1&searchText=locusname:{$id}", "name": "Phytozome Locus at Joint Genome Institute", "description": "Phytozome Locus at Joint Genome Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Glyma0021s00410", "resourceHomeUrl": "http://www.phytozome.net/", "institution": {"id": 1242, "name": "Joint Genome Institute, California, and the Center for Integrative Genomics, Lausanne", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Glyma0021s00410", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1244, "prefix": "subtilist", "mirId": "MIR:00000433", "name": "SubtiList", "pattern": "^BG\\d+$", "description": "SubtiList serves to collate and integrate various aspects of the genomic information from B. subtilis, the paradigm of sporulating Gram-positive bacteria.\r\nSubtiList provides a complete dataset of DNA and protein sequences derived from the paradigm strain B. subtilis 168, linked to the relevant annotations and functional assignments.", "created": "2019-06-11T14:17:19.310+0000", "modified": "2019-06-11T14:17:19.310+0000", "resources": [{"id": 1246, "mirId": "MIR:00100557", "urlPattern": "http://genolist.pasteur.fr/SubtiList/genome.cgi?external_query+{$id}", "name": "SubtiList at Pasteur Institute", "description": "SubtiList at Pasteur Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "BG11523", "resourceHomeUrl": "http://genolist.pasteur.fr/SubtiList/", "institution": {"id": 1245, "name": "Pasteur Institute, Paris", "homeUrl": "http://www.pasteur.fr/en", "description": "The Institut Pasteur is a private, non-profit foundation. 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Drug labeling is the most recent submitted to the Food and Drug Administration (FDA) and currently in use; it may include, for example, strengthened warnings undergoing FDA review or minor editorial changes. These labels have been reformatted to make them easier to read.", "created": "2019-06-11T14:17:19.532+0000", "modified": "2019-06-11T14:17:19.532+0000", "resources": [{"id": 1249, "mirId": "MIR:00100558", "urlPattern": "https://dailymed.nlm.nih.gov/dailymed/drugInfo.cfm?setid={$id}", "name": "DailyMed at NLM", "description": "DailyMed at NLM", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "973a9333-fec7-46dd-8eb5-25738f06ee54", "resourceHomeUrl": "https://dailymed.nlm.nih.gov/dailymed/", "institution": {"id": 1248, "name": "U.S. National Library of Medicine, Bethesda, Maryland", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "973a9333-fec7-46dd-8eb5-25738f06ee54", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1250, "prefix": "sider.drug", "mirId": "MIR:00000435", "name": "SIDER Drug", "pattern": "^\\d+$", "description": "SIDER (Side Effect Resource) is a public, computer-readable side effect resource that connects drugs to side effect terms. It aggregates dispersed public information on side effects. This collection references drugs in SIDER.", "created": "2019-06-11T14:17:19.846+0000", "modified": "2019-06-11T14:17:19.846+0000", "resources": [{"id": 1252, "mirId": "MIR:00100559", "urlPattern": "http://sideeffects.embl.de/drugs/{$id}/", "name": "SIDER Drug v2 at EMBL (Heidelberg)", "description": "SIDER Drug v2 at EMBL (Heidelberg)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2244", "resourceHomeUrl": "http://sideeffects.embl.de/", "institution": {"id": 1251, "name": "Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg", "homeUrl": "https://www.embl.org/research/units/structural-and-computational-biology/", "description": "The unit currently consists of 14 groups covering a broad methodological spectrum that allows tackling problems at different ranges of spatial and temporal resolution from single amino acid side chain conformations to organismal communities. 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We focus on developing fundamentally new technologies, conducting basic research that furthers the field of computing, and inspiring and educating future generations of scientists and technologists.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "3771877", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1258, "prefix": "broad", "mirId": "MIR:00000438", "name": "Broad Fungal Genome Initiative", "pattern": "^S\\d+$", "description": "Magnaporthe grisea, the causal agent of rice blast disease, is one of the most devasting threats to food security worldwide and is a model organism for studying fungal phytopathogenicity and host-parasite interactions. 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As part of the Broad Fungal Genome Initiative, the Magnaporthe comparative project includes the finished M. oryzae (formerly M. grisea) genome, as well as the draft assemblies of Gaeumannomyces graminis var. tritici and M. poae.", "created": "2019-06-11T14:17:20.539+0000", "modified": "2019-06-11T14:17:20.539+0000", "resources": [{"id": 1260, "mirId": "MIR:00100569", "urlPattern": "https://www.broadinstitute.org/annotation/genome/magnaporthe_grisea/GeneDetails.html?sp={$id}", "name": "Broad Fungal Genome Initiative at Broad Institute", "description": "Broad Fungal Genome Initiative at Broad Institute", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "S7000002168151102", "resourceHomeUrl": "https://www.broadinstitute.org/annotation/genome/magnaporthe_grisea/", "institution": {"id": 1259, "name": "Broad Institute of MIT and Harvard, Cambridge, Massachuchetts", "homeUrl": "https://ror.org/05a0ya142", "description": "The Broad Institute of MIT and Harvard is a research organization that convenes a community of researchers from across many disciplines and partner institutions\u2014MIT, Harvard, and Harvard-affiliated hospitals.", "rorId": "https://ror.org/05a0ya142", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "S7000002168151102", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1261, "prefix": "coriell", "mirId": "MIR:00000439", "name": "Coriell Cell Repositories", "pattern": "^[A-Z]{2}\\d+$", "description": "The Coriell Cell Repositories provide essential research reagents to the scientific community by establishing, verifying, maintaining, and distributing cell cultures and DNA derived from cell cultures. These collections, supported by funds from the National Institutes of Health (NIH) and several foundations, are extensively utilized by research scientists around the world.", "created": "2019-06-11T14:17:20.763+0000", "modified": "2019-06-11T14:17:20.763+0000", "resources": [{"id": 1263, "mirId": "MIR:00100570", "urlPattern": "http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref={$id}", "name": "Coriell Cell Repositories at Coriell Institute", "description": "Coriell Cell Repositories at Coriell Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "GM17027", "resourceHomeUrl": "http://ccr.coriell.org/", "institution": {"id": 1262, "name": "Coriell Institute for Medical Research, New Jersey", "homeUrl": "https://ror.org/04npwsp41", "description": "Research is our driving mission at Coriell. 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We are a state agriculture agency part of Texas A&M AgriLife, which allows us to fund research across many fields.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "aaeA", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1270, "prefix": "genprop", "mirId": "MIR:00000443", "name": "Genome Properties", "pattern": "^GenProp\\d+$", "description": "Genome properties is an annotation system whereby functional attributes can be assigned to a genome, based on the presence of a defined set of protein signatures within that genome.", "created": "2019-06-11T14:17:21.507+0000", "modified": "2019-06-11T14:17:21.507+0000", "resources": [{"id": 1271, "mirId": "MIR:00100910", "urlPattern": "https://www.ebi.ac.uk/interpro/genomeproperties/#{$id}", "name": "Genome Properties", "description": "Genome Properties", "official": true, "providerCode": "ebi", "sampleId": "GenProp0699", "resourceHomeUrl": "https://www.ebi.ac.uk/interpro/genomeproperties/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "GenProp0699", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1272, "prefix": "jstor", "mirId": "MIR:00000444", "name": "JSTOR", "pattern": "^\\d+$", "description": "JSTOR (Journal Storage) is a digital library containing digital versions of historical academic journals, as well as books, pamphlets and current issues of journals. 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This collection references Drosophila data.", "created": "2019-06-11T14:17:25.854+0000", "modified": "2019-06-11T14:17:25.854+0000", "resources": [{"id": 1323, "mirId": "MIR:00100596", "urlPattern": "http://func.mshri.on.ca/fly/genes/list_functional_scores/{$id}", "name": "FuncBase Fly at Harvard Medical School", "description": "FuncBase Fly at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "10194", "resourceHomeUrl": "http://func.mshri.on.ca/fly", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "10194", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1324, "prefix": "funcbase.human", "mirId": "MIR:00000462", "name": "FuncBase Human", "pattern": "^\\d+$", "description": "Computational gene function prediction can serve to focus experimental resources on high-priority experimental tasks. FuncBase is a web resource for viewing quantitative machine learning-based gene function annotations. Quantitative annotations of genes, including fungal and mammalian genes, with Gene Ontology terms are accompanied by a community feedback system. Evidence underlying function annotations is shown. FuncBase provides links to external resources, and may be accessed directly or via links from species-specific databases. This collection references human data.", "created": "2019-06-11T14:17:26.074+0000", "modified": "2019-06-11T14:17:26.074+0000", "resources": [{"id": 1325, "mirId": "MIR:00100597", "urlPattern": "http://func.mshri.on.ca/human/genes/list_functional_scores/{$id}", "name": "FuncBase Human at Harvard Medical School", "description": "FuncBase Human at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "119514", "resourceHomeUrl": "http://func.mshri.on.ca/human/", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "119514", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1326, "prefix": "funcbase.mouse", "mirId": "MIR:00000463", "name": "FuncBase Mouse", "pattern": "^\\d+$", "description": "Computational gene function prediction can serve to focus experimental resources on high-priority experimental tasks. FuncBase is a web resource for viewing quantitative machine learning-based gene function annotations. Quantitative annotations of genes, including fungal and mammalian genes, with Gene Ontology terms are accompanied by a community feedback system. Evidence underlying function annotations is shown. FuncBase provides links to external resources, and may be accessed directly or via links from species-specific databases. This collection references mouse.", "created": "2019-06-11T14:17:26.285+0000", "modified": "2019-06-11T14:17:26.285+0000", "resources": [{"id": 1327, "mirId": "MIR:00100598", "urlPattern": "http://func.mshri.on.ca/mouse/genes/list_functional_scores/{$id}", "name": "FuncBase Mouse at Harvard Medical School", "description": "FuncBase Mouse at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1351341", "resourceHomeUrl": "http://func.mshri.on.ca/mouse/", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1351341", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1881, "prefix": "cbioportal", "mirId": "MIR:00000679", "name": "The cBioPortal for Cancer Genomics", "pattern": "^[a-z0-9\\_]+$", "description": "The cBioPortal for Cancer Genomics provides visualization, analysis and download of large-scale cancer genomics data sets.", "created": "2019-06-11T14:18:18.874+0000", "modified": "2019-06-11T14:18:18.874+0000", "resources": [{"id": 1883, "mirId": "MIR:00100909", "urlPattern": "http://www.cbioportal.org/study?id={$id}#summary", "name": "The cBioPortal for Cancer Genomics", "description": "The cBioPortal for Cancer Genomics", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "laml_tcga_pub", "resourceHomeUrl": "http://www.cbioportal.org", "institution": {"id": 1882, "name": "Memorial Sloan Kettering Cancer Center", "homeUrl": "https://www.mskcc.org/", "description": "The people of Memorial Sloan Kettering Cancer Center (MSK) are united by a singular mission: ending cancer for life. Our specialized care teams provide personalized, compassionate, expert care to patients of all ages. Informed by basic research done at our Sloan Kettering Institute, scientists across MSK collaborate to conduct innovative translational and clinical research that is driving a revolution in our understanding of cancer as a disease and improving the ability to prevent, diagnose, and treat it. MSK is dedicated to training the next generation of scientists and clinicians, who go on to pursue our mission at MSK and around the globe. One of the world\u2019s most respected comprehensive centers devoted exclusively to cancer, we have been recognized as one of the top two cancer hospitals in the country by U.S. News & World Report for more than 30 years. ", "rorId": "https://ror.org/02yrq0923", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "laml_tcga_pub", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1328, "prefix": "funcbase.yeast", "mirId": "MIR:00000464", "name": "FuncBase Yeast", "pattern": "^\\d+$", "description": "Computational gene function prediction can serve to focus experimental resources on high-priority experimental tasks. FuncBase is a web resource for viewing quantitative machine learning-based gene function annotations. Quantitative annotations of genes, including fungal and mammalian genes, with Gene Ontology terms are accompanied by a community feedback system. Evidence underlying function annotations is shown. FuncBase provides links to external resources, and may be accessed directly or via links from species-specific databases. This collection references yeast.", "created": "2019-06-11T14:17:26.470+0000", "modified": "2019-06-11T14:17:26.470+0000", "resources": [{"id": 1329, "mirId": "MIR:00100599", "urlPattern": "http://func.mshri.on.ca/yeast/genes/list_functional_scores/{$id}", "name": "FuncBase Yeast at Harvard Medical School", "description": "FuncBase Yeast at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2701", "resourceHomeUrl": "http://func.mshri.on.ca/yeast", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2701", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1330, "prefix": "ydpm", "mirId": "MIR:00000465", "name": "YDPM", "pattern": "^Y[A-Z]{2}\\d+[CW]$", "description": "The YDPM database serves to support the Yeast Deletion and the Mitochondrial Proteomics Project. The project aims to increase the understanding of mitochondrial function and biogenesis in the context of the cell. In the Deletion Project, strains from the deletion collection were monitored under 9 different media conditions selected for the study of mitochondrial function. The YDPM database contains both the raw data and growth rates calculated for each strain in each media condition.", "created": "2019-06-11T14:17:26.654+0000", "modified": "2019-06-11T14:17:26.654+0000", "resources": [{"id": 1332, "mirId": "MIR:00100600", "urlPattern": "http://www-deletion.stanford.edu/cgi-bin/YDPM/YDPM_search.cgi?thelist={$id}", "name": "YDPM at Stanford University School of Medicine", "description": "YDPM at Stanford University School of Medicine", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "YAL001C", "resourceHomeUrl": "http://www-deletion.stanford.edu/YDPM/", "institution": {"id": 1331, "name": "Stanford University School of Medicine, Stanford, California", "homeUrl": "http://med.stanford.edu/", "description": "A leader in the biomedical revolution, Stanford Medicine has a long tradition of leadership in pioneering research, creative teaching protocols and effective clinical therapies.", "rorId": "https://ror.org/03mtd9a03", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "YAL001C", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1333, "prefix": "wb.rnai", "mirId": "MIR:00000466", "name": "WormBase RNAi", "pattern": "^WBRNAi\\d{8}$", "description": "WormBase is an online bioinformatics database of the biology and genome of the model organism Caenorhabditis elegans and related nematodes. It is used by the C. elegans research community both as an information resource and as a mode to publish and distribute their results. This collection references RNAi experiments, detailing target and phenotypes.", "created": "2019-06-11T14:17:26.886+0000", "modified": "2019-06-11T14:17:26.886+0000", "resources": [{"id": 1334, "mirId": "MIR:00100601", "urlPattern": "https://www.wormbase.org/species/c_elegans/rnai/{$id}", "name": "WormBase RNAi", "description": "WormBase RNAi", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "WBRNAi00086878", "resourceHomeUrl": "https://www.wormbase.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "WBRNAi00086878", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1335, "prefix": "pass2", "mirId": "MIR:00000468", "name": "PASS2", "pattern": "^\\d+$", "description": "The PASS2 database provides alignments of proteins related at the superfamily level and are characterized by low sequence identity.", "created": "2019-06-11T14:17:27.086+0000", "modified": "2019-06-11T14:17:27.086+0000", "resources": [{"id": 1337, "mirId": "MIR:00100603", "urlPattern": "http://caps.ncbs.res.in/cgi-bin/pass2//show_sf.py?sf_id={$id}", "name": "PASS2 at National centre for Biological Sciences (India)", "description": "PASS2 at National centre for Biological Sciences (India)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "46977", "resourceHomeUrl": "http://caps.ncbs.res.in/pass2/", "institution": {"id": 1336, "name": "National centre for Biological Sciences, TIFR, GKVK campus, Bangalore, Karnataka", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "IN", "countryName": "India"}}, "location": {"countryCode": "IN", "countryName": "India"}, "deprecated": false, "deprecationDate": null}], "sampleId": "46977", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1338, "prefix": "iceberg.element", "mirId": "MIR:00000469", "name": "ICEberg element", "pattern": "^\\d+$", "description": "ICEberg (Integrative and conjugative elements) is a database of integrative and conjugative elements (ICEs) found in bacteria. ICEs are conjugative self-transmissible elements that can integrate into and excise from a host chromosome, and can carry likely virulence determinants, antibiotic-resistant factors and/or genes coding for other beneficial traits. It contains details of ICEs found in representatives bacterial species, and which are organised as families. This collection references ICE elements.", "created": "2019-06-11T14:17:27.338+0000", "modified": "2019-06-11T14:17:27.338+0000", "resources": [{"id": 1340, "mirId": "MIR:00100604", "urlPattern": "http://db-mml.sjtu.edu.cn/ICEberg/feature_page.php?ice_id={$id}", "name": "ICEberg element at Shanghai Jiaotong University", "description": "ICEberg element at Shanghai Jiaotong University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "100", "resourceHomeUrl": "http://db-mml.sjtu.edu.cn/ICEberg/", "institution": {"id": 1339, "name": "State Key Laboratory of Microbial Metabolism and School of Life Sciences &amp;amp;amp; Biotechnology, Shanghai Jiaotong University, Shanghai", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "100", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1341, "prefix": "iceberg.family", "mirId": "MIR:00000470", "name": "ICEberg family", "pattern": "^\\d+$", "description": "ICEberg (Integrative and conjugative elements) is a database of integrative and conjugative elements (ICEs) found in bacteria. ICEs are conjugative self-transmissible elements that can integrate into and excise from a host chromosome, and can carry likely virulence determinants, antibiotic-resistant factors and/or genes coding for other beneficial traits. It contains details of ICEs found in representatives bacterial species, and which are organised as families. This collection references ICE families.", "created": "2019-06-11T14:17:27.601+0000", "modified": "2019-06-11T14:17:27.601+0000", "resources": [{"id": 1343, "mirId": "MIR:00100605", "urlPattern": "http://db-mml.sjtu.edu.cn/ICEberg/browse_result.php?type=fam&fam_id={$id}", "name": "ICEberg family at Shanghai Jiaotong University", "description": "ICEberg family at Shanghai Jiaotong University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1", "resourceHomeUrl": "http://db-mml.sjtu.edu.cn/ICEberg/", "institution": {"id": 1342, "name": "State Key Laboratory of Microbial Metabolism and School of Life Sciences &amp; Biotechnology, Shanghai Jiaotong University, Shanghai", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1344, "prefix": "vfdb.genus", "mirId": "MIR:00000471", "name": "VFDB Genus", "pattern": "^\\w+$", "description": "VFDB is a repository of virulence factors (VFs) of pathogenic bacteria.This collection references VF information by Genus.", "created": "2019-06-11T14:17:27.811+0000", "modified": "2019-06-11T14:17:27.811+0000", "resources": [{"id": 1346, "mirId": "MIR:00100606", "urlPattern": "http://www.mgc.ac.cn/cgi-bin/VFs/genus.cgi?Genus={$id}", "name": "VFDB Genus at Institute of Pathogen Biology", "description": "VFDB Genus at Institute of Pathogen Biology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Chlamydia", "resourceHomeUrl": "http://www.mgc.ac.cn/VFs/", "institution": {"id": 1345, "name": "State Key Laboratory for Molecular Virology and Genetic Engineering, Institute of Pathogen Biology, Chinese Academy Medical Sciences and Peking Union Medical College, Beijing", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Chlamydia", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1347, "prefix": "vfdb.gene", "mirId": "MIR:00000472", "name": "VFDB Gene", "pattern": "^\\w+$", "description": "VFDB is a repository of virulence factors (VFs) of pathogenic bacteria.This collection references VF genes.", "created": "2019-06-11T14:17:28.027+0000", "modified": "2019-06-11T14:17:28.027+0000", "resources": [{"id": 1348, "mirId": "MIR:00100607", "urlPattern": "http://www.mgc.ac.cn/cgi-bin/VFs/gene.cgi?GeneID={$id}", "name": "VFDB Gene at Institute of Pathogen Biology", "description": "VFDB Gene at Institute of Pathogen Biology", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "VFG2154", "resourceHomeUrl": "http://www.mgc.ac.cn/VFs/", "institution": {"id": 1345, "name": "State Key Laboratory for Molecular Virology and Genetic Engineering, Institute of Pathogen Biology, Chinese Academy Medical Sciences and Peking Union Medical College, Beijing", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "VFG2154", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1349, "prefix": "mesh.2013", "mirId": "MIR:00000473", "name": "MeSH 2013", "pattern": "^[A-Za-z0-9]+$", "description": "MeSH (Medical Subject Headings) is the National Library of Medicine's controlled vocabulary thesaurus. It consists of sets of terms naming descriptors in a hierarchical structure that permits searching at various levels of specificity. This thesaurus is used by NLM for indexing articles from biomedical journals, cataloging of books, documents, etc. This collection references MeSH terms published in 2013.", "created": "2019-06-11T14:17:28.224+0000", "modified": "2019-06-11T14:17:28.224+0000", "resources": [{"id": 1350, "mirId": "MIR:00100608", "urlPattern": "http://www.nlm.nih.gov/cgi/mesh/2013/MB_cgi?mode=&index={$id}&view=expanded", "name": "MeSH 2013 at National Library of Medicine", "description": "MeSH 2013 at National Library of Medicine", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "17165", "resourceHomeUrl": "http://www.nlm.nih.gov/mesh/", "institution": {"id": 792, "name": "U.S. National Library of Medicine, National Institute of Health, Maryland", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "17165", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1351, "prefix": "kegg.module", "mirId": "MIR:00000474", "name": "KEGG Module", "pattern": "^([a-z]{3,5}_)?M\\d{5}$", "description": "KEGG Modules are manually defined functional units used in the annotation and biological interpretation of sequenced genomes. Each module corresponds to a set of 'KEGG Orthology' (MIR:00000116) entries. KEGG Modules can represent pathway, structural, functional or signature modules.", "created": "2019-06-11T14:17:28.414+0000", "modified": "2019-06-11T14:17:28.414+0000", "resources": [{"id": 1352, "mirId": "MIR:00100609", "urlPattern": "http://www.kegg.jp/entry/{$id}", "name": "KEGG Module at Kyoto University Bioinformatics Center", "description": "KEGG Module at Kyoto University Bioinformatics Center", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "M00002", "resourceHomeUrl": "http://www.kegg.jp/kegg/module.html", "institution": {"id": 367, "name": "Department of Computational Biology, University of Tokyo, Tokyo", "homeUrl": "https://www.cbms.k.u-tokyo.ac.jp/english/index.html", "description": "he department of Medical Genome Sciences and the department of Computational Biology have been merged, resulting in the establishment of a unique new major that is unprecedented in Japan. The objectives of this new major are to lead the way in information-oriented life science while significantly contributing to life innovation, and to cultivate personnel capable of translating the results in the clinical setting. To this end,we believe that it is necessary to develop personnel with a novel specialty by actively employing on-the-job training in state-of-the-art informatics and medical science research settings and implementing a basic education environment for integrating information science and medical science. This kind of personnel is required not only in medicine, but also in other technical fields such as agricultural sciences, pharmaceutical sciences, environmental studies and biotechnology.", "rorId": null, "location": {"countryCode": "JP", "countryName": "Japan"}}, "location": {"countryCode": "JP", "countryName": "Japan"}, "deprecated": false, "deprecationDate": null}], "sampleId": "M00002", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1353, "prefix": "kegg.disease", "mirId": "MIR:00000475", "name": "KEGG Disease", "pattern": "^H\\d+$", "description": "The KEGG DISEASE database is a collection of disease entries capturing knowledge on genetic and environmental perturbations. Each disease entry contains a list of known genetic factors (disease genes), environmental factors, diagnostic markers, and therapeutic drugs. Diseases are viewed as perturbed states of the molecular system, and drugs as perturbants to the molecular system.", "created": "2019-06-11T14:17:28.601+0000", "modified": "2019-06-11T14:17:28.601+0000", "resources": [{"id": 1354, "mirId": "MIR:00100610", "urlPattern": "http://www.kegg.jp/entry/{$id}", "name": "KEGG Disease at Kyoto University Bioinformatics Center", "description": "KEGG Disease at Kyoto University Bioinformatics Center", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "H00076", "resourceHomeUrl": "http://www.genome.jp/kegg/disease/", "institution": {"id": 705, "name": "Kyoto University Bioinformatics Center, Kyoto", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "JP", "countryName": "Japan"}}, "location": {"countryCode": "JP", "countryName": "Japan"}, "deprecated": false, "deprecationDate": null}], "sampleId": "H00076", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1355, "prefix": "medlineplus", "mirId": "MIR:00000476", "name": "MedlinePlus", "pattern": "^\\d+$", "description": "MedlinePlus is the National Institutes of Health's Web site for patients and their families and friends. Produced by the National Library of Medicine, it provides information about diseases, conditions, and wellness issues using non-technical terms and language.", "created": "2019-06-11T14:17:28.795+0000", "modified": "2019-06-11T14:17:28.795+0000", "resources": [{"id": 1356, "mirId": "MIR:00100611", "urlPattern": "http://www.nlm.nih.gov/medlineplus/ency/article/{$id}.htm", "name": "MedlinePlus at NCBI", "description": "MedlinePlus at NCBI", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "002804", "resourceHomeUrl": "http://www.nlm.nih.gov/medlineplus/", "institution": {"id": 26, "name": "National Center for Biotechnology Information", "homeUrl": "https://www.ncbi.nlm.nih.gov/", "description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.", "rorId": "https://ror.org/02meqm098", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "002804", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1360, "prefix": "glycoepitope", "mirId": "MIR:00000478", "name": "GlycoEpitope", "pattern": "^EP\\d{4}$", "description": "GlycoEpitope is a database containing useful information about carbohydrate antigens (glyco-epitopes) and the antibodies (polyclonal or monoclonal) that can be used to analyze their expression. 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Ritsumeikan, as an institute of education and research, pledges to promote peace, democracy and sustainable development in Japan and throughout the world, in keeping with the spirit of this Charter. ", "rorId": null, "location": {"countryCode": "JP", "countryName": "Japan"}}, "location": {"countryCode": "JP", "countryName": "Japan"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EP0311", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1363, "prefix": "jcggdb", "mirId": "MIR:00000479", "name": "JCGGDB", "pattern": "^JCGG-STR\\d{6}$", "description": "JCGGDB (Japan Consortium for Glycobiology and Glycotechnology DataBase) is a database that aims to integrate all glycan-related data held in various repositories in Japan. 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This collection references wild strain information.", "created": "2019-06-11T14:17:30.425+0000", "modified": "2019-06-11T14:17:30.425+0000", "resources": [{"id": 1376, "mirId": "MIR:00100620", "urlPattern": "http://www.shigen.nig.ac.jp/rice/oryzabaseV4/strain/wildCore/detail/{$id}", "name": "Oryzabase v4 Strain at National Institute of Genetics (Japan)", "description": "Oryzabase v4 Strain at National Institute of Genetics (Japan)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1", "resourceHomeUrl": "http://www.shigen.nig.ac.jp/rice/oryzabaseV4/", "institution": {"id": 1371, "name": "Genetic Strains Research Center, National Institute of Genetics, Mishima, Shizuoka", "homeUrl": "http://www.nig.ac.jp/nig/", "description": "Research NIG conducts top-level research in life sciences leveraging on approaches and resources in Genetics. NIG also develops new research fields within the broader concept of Genetics. 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This collections references inhibitors.", "created": "2019-06-11T14:17:32.129+0000", "modified": "2019-06-11T14:17:32.129+0000", "resources": [{"id": 1394, "mirId": "MIR:00100632", "urlPattern": "http://merops.sanger.ac.uk/cgi-bin/pepsum?id={$id}", "name": "MEROPS Inhibitor at Sanger Institute", "description": "MEROPS Inhibitor at Sanger Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "I31.952", "resourceHomeUrl": "http://merops.sanger.ac.uk/index.htm", "institution": {"id": 1393, "name": "Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "I31.952", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1395, "prefix": "adw", "mirId": "MIR:00000492", "name": "Animal Diversity Web", "pattern": "^[A-Z_a-z]+$", "description": "Animal Diversity Web (ADW) is an online database of animal natural history, distribution, classification, and conservation biology.", "created": "2019-06-11T14:17:32.366+0000", "modified": "2019-06-11T14:17:32.366+0000", "resources": [{"id": 1397, "mirId": "MIR:00100633", "urlPattern": "https://animaldiversity.org/accounts/{$id}/", "name": "Animal Diversity Web at University of Michigan", "description": "Animal Diversity Web at University of Michigan", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Lycalopex_vetulus", "resourceHomeUrl": "https://animaldiversity.org/", "institution": {"id": 1396, "name": "University of Michigan Museum of Zoology, Ann Arbor, Michigan", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Lycalopex_vetulus", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1398, "prefix": "glida.gpcr", "mirId": "MIR:00000493", "name": "GLIDA GPCR", "pattern": "^[A-Z-_0-9]+$", "description": "The GPCR-LIgand DAtabase (GLIDA) is a GPCR-related chemical genomic database that is primarily focused on the correlation of information between GPCRs and their ligands. 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This collection references G-protein coupled receptors.", "created": "2019-06-11T14:17:32.633+0000", "modified": "2019-06-11T14:17:32.633+0000", "resources": [{"id": 1400, "mirId": "MIR:00100634", "urlPattern": "http://pharminfo.pharm.kyoto-u.ac.jp/services/glida/gpcr_information.php?id={$id}", "name": "GLIDA GPCR at Kyoto University", "description": "GLIDA GPCR at Kyoto University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ACM1_HUMAN", "resourceHomeUrl": "http://pharminfo.pharm.kyoto-u.ac.jp/services/glida/", "institution": {"id": 1399, "name": "Department of Genomic Drug Discovery Science, Graduate School of Pharmaceutical Sciences, Kyoto University, Sakyo-ku, Kyoto", "homeUrl": "https://www.pharm.kyoto-u.ac.jp/en/research/research-organization/research-profile/ciepps/", "description": "Development of tissue/intracellular targeted drug delivery systems using biomolecular recognition mechanisms. Development of pharmacokinetics and toxicity evaluation systems using the microfluidic devices. Information analysis of adverse event databases and its application to risk assessment. Molecular dynamics and pharmacological analysis of adverse reaction and research on development for prevention and treatment.", "rorId": null, "location": {"countryCode": "JP", "countryName": "Japan"}}, "location": {"countryCode": "JP", "countryName": "Japan"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ACM1_HUMAN", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1401, "prefix": "glida.ligand", "mirId": "MIR:00000494", "name": "GLIDA Ligand", "pattern": "^L\\d+$", "description": "The GPCR-LIgand DAtabase (GLIDA) is a GPCR-related chemical genomic database that is primarily focused on the correlation of information between GPCRs and their ligands. It provides correlation data between GPCRs and their ligands, along with chemical information on the ligands. This collection references ligands.", "created": "2019-06-11T14:17:32.872+0000", "modified": "2019-06-11T14:17:32.872+0000", "resources": [{"id": 1402, "mirId": "MIR:00100635", "urlPattern": "http://pharminfo.pharm.kyoto-u.ac.jp/services/glida/ligand_information.php?id={$id}", "name": "GLIDA Ligand at Kyoto University", "description": "GLIDA Ligand at Kyoto University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "L000001", "resourceHomeUrl": "http://pharminfo.pharm.kyoto-u.ac.jp/services/glida/", "institution": {"id": 1399, "name": "Department of Genomic Drug Discovery Science, Graduate School of Pharmaceutical Sciences, Kyoto University, Sakyo-ku, Kyoto", "homeUrl": "https://www.pharm.kyoto-u.ac.jp/en/research/research-organization/research-profile/ciepps/", "description": "Development of tissue/intracellular targeted drug delivery systems using biomolecular recognition mechanisms. 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The data stored in the GRSDB is based on computational analysis of NCBI Entrez Gene entries and their corresponding annotated genomic nucleotide sequences of RefSeq/GenBank.", "created": "2019-06-11T14:17:33.087+0000", "modified": "2019-06-11T14:17:33.087+0000", "resources": [{"id": 1405, "mirId": "MIR:00100636", "urlPattern": "http://bioinformatics.ramapo.edu/GRSDB2/geneview.php?geneID={$id}", "name": "GRSDB v2 at Ramapo College of New Jersey", "description": "GRSDB v2 at Ramapo College of New Jersey", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "10142", "resourceHomeUrl": "http://bioinformatics.ramapo.edu/GRSDB2/", "institution": {"id": 1404, "name": "Ramapo College", "homeUrl": "https://www.ramapo.edu/", "description": "Established in 1969, Ramapo College offers bachelor\u2019s degrees in the arts, business, humanities, social sciences and the sciences, as well as in professional studies, which include business, elementary education, nursing and social work. In fall 2020, the College will be enrolling students in both a bachelor\u2019s and master\u2019s degree in data science, only one of two higher education institutions in New Jersey to offer both programs.", "rorId": "https://ror.org/03s2x9d90", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "10142", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1447, "prefix": "px", "mirId": "MIR:00000513", "name": "ProteomeXchange", "pattern": "^(R)?PXD\\d{6}$", "description": "The ProteomeXchange provides a single point of submission of Mass Spectrometry (MS) proteomics data for the main existing proteomics repositories, and encourages the data exchange between them for optimal data dissemination.", "created": "2019-06-11T14:17:37.549+0000", "modified": "2019-06-11T14:17:37.549+0000", "resources": [{"id": 1449, "mirId": "MIR:00100660", "urlPattern": "http://proteomecentral.proteomexchange.org/cgi/GetDataset?ID={$id}", "name": "ProteomeXchange at Seattle", "description": "ProteomeXchange at Seattle", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "PXD000500", "resourceHomeUrl": "http://www.proteomexchange.org/", "institution": {"id": 193, "name": "Institute for Systems Biology", "homeUrl": "https://isbscience.org/", "description": "ISB was created in 2000 as the first-ever institute dedicated to systems biology.", "rorId": "https://ror.org/02tpgw303", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "PXD000500", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1450, "prefix": "biomodels.vocabulary", "mirId": "MIR:00000514", "name": "SBML RDF Vocabulary", "pattern": "^[A-Za-z]+$", "description": "Vocabulary used in the RDF representation of SBML models.", "created": "2019-06-11T14:17:37.784+0000", "modified": "2019-06-11T14:17:37.784+0000", "resources": [{"id": 1452, "mirId": "MIR:00100661", "urlPattern": "http://biomodels.net/rdf/vocabulary.rdf#{$id}", "name": "Vocabulary via BioModels.net", "description": "Vocabulary via BioModels.net", "official": false, "providerCode": "ebi", "sampleId": "rateRule", "resourceHomeUrl": "http://biomodels.net/rdf/vocabulary.rdf", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "rateRule", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1406, "prefix": "fsnp", "mirId": "MIR:00000496", "name": "F-SNP", "pattern": "^rs\\d+$", "description": "The Functional Single Nucleotide Polymorphism (F-SNP) database integrates information obtained from databases about the functional effects of SNPs. These effects are predicted and indicated at the splicing, transcriptional, translational and post-translational level. In particular, users can retrieve SNPs that disrupt genomic regions known to be functional, including splice sites and transcriptional regulatory regions. Users can also identify non-synonymous SNPs that may have deleterious effects on protein structure or function, interfere with protein translation or impede post-translational modification.", "created": "2019-06-11T14:17:33.340+0000", "modified": "2019-06-11T14:17:33.340+0000", "resources": [{"id": 1408, "mirId": "MIR:00100637", "urlPattern": "http://compbio.cs.queensu.ca/cgi-bin/compbio/search/main.cgi?search_mode=id&id_type=snp_id&id_val={$id}", "name": "F-SNP at Queen's University (Canada)", "description": "F-SNP at Queen's University (Canada)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "rs17852708", "resourceHomeUrl": "http://compbio.cs.queensu.ca/F-SNP/", "institution": {"id": 1407, "name": "Computational Biology and Machine Learning Lab, School of Computing, Queen's University, Kingston, Ontario", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CA", "countryName": "Canada"}}, "location": {"countryCode": "CA", "countryName": "Canada"}, "deprecated": false, "deprecationDate": null}], "sampleId": "rs17852708", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1409, "prefix": "hdr", "mirId": "MIR:00000497", "name": "Homeodomain Research", "pattern": "^\\d+$", "description": "The Homeodomain Resource is a curated collection of sequence, structure, interaction, genomic and functional information on the homeodomain family. It contains sets of curated homeodomain sequences from fully sequenced genomes, including experimentally derived homeodomain structures, homeodomain protein-protein interactions, homeodomain DNA-binding sites and homeodomain proteins implicated in human genetic disorders.", "created": "2019-06-11T14:17:33.593+0000", "modified": "2019-06-11T14:17:33.593+0000", "resources": [{"id": 1411, "mirId": "MIR:00100638", "urlPattern": "http://research.nhgri.nih.gov/apps/homeodomain/web/index.cgi?mode=view&view=proteins&id={$id}", "name": "Homeodomain Research at National Human Genome Research Institute (NIH)", "description": "Homeodomain Research at National Human Genome Research Institute (NIH)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "63", "resourceHomeUrl": "http://research.nhgri.nih.gov/apps/homeodomain/web/", "institution": {"id": 1410, "name": "Genome Technology Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, Maryland", "homeUrl": "https://www.genome.gov/", "description": "Led by Director Eric Green, M.D., Ph.D., the National Human Genome Research Institute (NHGRI) is the driving force for advancing genomics research at the National Institutes of Health (NIH), the largest biomedical research agency in the world. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "63", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1412, "prefix": "norine", "mirId": "MIR:00000498", "name": "NORINE", "pattern": "^NOR\\d+$", "description": "Norine is a database dedicated to nonribosomal peptides (NRPs). In bacteria and fungi, in addition to the traditional ribosomal proteic biosynthesis, an alternative ribosome-independent pathway called NRP synthesis allows peptide production. The molecules synthesized by NRPS contain a high proportion of nonproteogenic amino acids whose primary structure is not always linear, often being more complex and containing cycles and branchings.", "created": "2019-06-11T14:17:33.862+0000", "modified": "2019-06-11T14:17:33.862+0000", "resources": [{"id": 1414, "mirId": "MIR:00100639", "urlPattern": "http://bioinfo.lifl.fr/norine/result.jsp?ID={$id}", "name": "NORINE at Computer Science Laboratory of Lille", "description": "NORINE at Computer Science Laboratory of Lille", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "NOR00681", "resourceHomeUrl": "http://bioinfo.lifl.fr/norine/", "institution": {"id": 1413, "name": "Computer Science Laboratory of Lille, INRIA and ProBioGEM, University of Sciences and Technologies of Lille, Lille", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "FR", "countryName": "France"}}, "location": {"countryCode": "FR", "countryName": "France"}, "deprecated": false, "deprecationDate": null}], "sampleId": "NOR00681", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1415, "prefix": "ordb", "mirId": "MIR:00000499", "name": "Olfactory Receptor Database", "pattern": "^\\d+$", "description": "The Olfactory Receptor Database (ORDB) is a repository of genomics and proteomics information of olfactory receptors (ORs). It includes a broad range of chemosensory genes and proteins, that includes in addition to ORs the taste papilla receptors (TPRs), vomeronasal organ receptors (VNRs), insect olfactory receptors (IORs), Caenorhabditis elegans chemosensory receptors (CeCRs), fungal pheromone receptors (FPRs).", "created": "2019-06-11T14:17:34.104+0000", "modified": "2019-06-11T14:17:34.104+0000", "resources": [{"id": 1417, "mirId": "MIR:00100640", "urlPattern": "http://senselab.med.yale.edu/ORDB/Data/{$id}", "name": "Olfactory Receptor Database at Yale University School of Medicine", "description": "Olfactory Receptor Database at Yale University School of Medicine", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "8497", "resourceHomeUrl": "http://senselab.med.yale.edu/OrDB/", "institution": {"id": 1416, "name": "Center for Medical Informatics, Yale University School of Medicine, New Haven, Connecticut", "homeUrl": "https://medicine.yale.edu/intmed/drc/research/institutional/ycmi/", "description": "The YCMI serves as a focus for training and systems development for a range of research projects. YCMI occupies 8,000 sq ft in the same building as the Keck Lab. It is headed by Perry Miller, M.D.,Ph.D., and has 15 core faculty members. It offers DERC investigators access to a novel data base management system, Trial/DB, a powerful, flexible, web-accessible database designed to support clinical trials and clinical research in a variety of areas, including diabetes.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "8497", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1418, "prefix": "odor", "mirId": "MIR:00000500", "name": "Odor Molecules DataBase", "pattern": "^\\d+$", "description": "OdorDB stores information related to odorous compounds, specifically identifying those that have been shown to interact with olfactory receptors", "created": "2019-06-11T14:17:34.340+0000", "modified": "2019-06-11T14:17:34.340+0000", "resources": [{"id": 1419, "mirId": "MIR:00100641", "urlPattern": "http://senselab.med.yale.edu/OdorDB/Data/{$id}/?db=5", "name": "Odor Molecules DataBase at Yale University School of Medicine", "description": "Odor Molecules DataBase at Yale University School of Medicine", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "74", "resourceHomeUrl": "http://senselab.med.yale.edu/OdorDB", "institution": {"id": 1416, "name": "Center for Medical Informatics, Yale University School of Medicine, New Haven, Connecticut", "homeUrl": "https://medicine.yale.edu/intmed/drc/research/institutional/ycmi/", "description": "The YCMI serves as a focus for training and systems development for a range of research projects. YCMI occupies 8,000 sq ft in the same building as the Keck Lab. It is headed by Perry Miller, M.D.,Ph.D., and has 15 core faculty members. It offers DERC investigators access to a novel data base management system, Trial/DB, a powerful, flexible, web-accessible database designed to support clinical trials and clinical research in a variety of areas, including diabetes.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "74", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1420, "prefix": "p3db.protein", "mirId": "MIR:00000501", "name": "P3DB Protein", "pattern": "^\\d+$", "description": "Plant Protein Phosphorylation DataBase (P3DB) is a database that provides information on experimentally determined phosphorylation sites in the proteins of various plant species. This collection references plant proteins that contain phosphorylation sites.", "created": "2019-06-11T14:17:34.528+0000", "modified": "2019-06-11T14:17:34.528+0000", "resources": [{"id": 1422, "mirId": "MIR:00100642", "urlPattern": "http://www.p3db.org/protein.php?id={$id}&ref=0", "name": "P3DB Protein at University of Missouri", "description": "P3DB Protein at University of Missouri", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "70", "resourceHomeUrl": "http://www.p3db.org/", "institution": {"id": 1421, "name": "Department of Computer Science, University of Missouri, Columbia, Missouri", "homeUrl": "https://engineering.missouri.edu/departments/eecs/", "description": "Mizzou Engineering educates engineering leaders who are driven by curiosity, wonder and a desire to make the world a better place. Here, you will have opportunities to collaborate with peers and faculty across campus to gain hands-on experience that complements your in-class coursework. And with 50+ engineering organizations and more than 600 student clubs at Mizzou, you will be able to connect with fellow Tigers who share your interests and passions.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "70", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1423, "prefix": "p3db.site", "mirId": "MIR:00000502", "name": "P3DB Site", "pattern": "^\\d+$", "description": "Plant Protein Phosphorylation DataBase (P3DB) is a database that provides information on experimentally determined phosphorylation sites in the proteins of various plant species. This collection references phosphorylation sites in proteins.", "created": "2019-06-11T14:17:34.763+0000", "modified": "2019-06-11T14:17:34.763+0000", "resources": [{"id": 1424, "mirId": "MIR:00100643", "urlPattern": "http://www.p3db.org/phosphosite.php?id={$id}&ref=0", "name": "P3DB Site at University of Missouri", "description": "P3DB Site at University of Missouri", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "65", "resourceHomeUrl": "http://www.p3db.org/", "institution": {"id": 1421, "name": "Department of Computer Science, University of Missouri, Columbia, Missouri", "homeUrl": "https://engineering.missouri.edu/departments/eecs/", "description": "Mizzou Engineering educates engineering leaders who are driven by curiosity, wonder and a desire to make the world a better place. Here, you will have opportunities to collaborate with peers and faculty across campus to gain hands-on experience that complements your in-class coursework. And with 50+ engineering organizations and more than 600 student clubs at Mizzou, you will be able to connect with fellow Tigers who share your interests and passions.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "65", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1425, "prefix": "topdb", "mirId": "MIR:00000503", "name": "TOPDB", "pattern": "^[A-Z0-9]+$", "description": "The Topology Data Bank of Transmembrane Proteins (TOPDB) is a collection of transmembrane protein datasets containing experimentally derived topology information. It contains information gathered from the literature and from public databases availableon transmembrane proteins. Each record in TOPDB also contains information on the given protein sequence, name, organism and cross references to various other databases.", "created": "2019-06-11T14:17:35.217+0000", "modified": "2019-06-11T14:17:35.217+0000", "resources": [{"id": 1427, "mirId": "MIR:00100644", "urlPattern": "http://topdb.enzim.hu/?m=show&id={$id}", "name": "TOPDB at Hungarian Academy of Sciences", "description": "TOPDB at Hungarian Academy of Sciences", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "AP00378", "resourceHomeUrl": "http://topdb.enzim.hu/", "institution": {"id": 1426, "name": "Institute of Enzymology, Hungarian Academy of Sciences, Budapest", "homeUrl": "http://www.ttk.hu/ei/en/", "description": "The Institute of Enzymology pursues research goals stretching across multiple fields of science, resulting in interdisciplinary research using the methods of biology, chemistry physics and informatics at the same time. Structural biological basic research of the institute is directed towards understanding physiological and pathophysiological processes on the scale of molecules and cells. Research topics are continuously extended from structural biology towards system biology to reveal complex biological processes by the utilization of advances in proteomics and bioinformatics.\n", "rorId": "https://ror.org/04t4pws42", "location": {"countryCode": "HU", "countryName": "Hungary"}}, "location": {"countryCode": "HU", "countryName": "Hungary"}, "deprecated": false, "deprecationDate": null}], "sampleId": "AP00378", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1428, "prefix": "cattleqtldb", "mirId": "MIR:00000504", "name": "Animal Genome Cattle QTL", "pattern": "^\\d+$", "description": "The Animal Quantitative Trait Loci (QTL) database (Animal QTLdb) is designed to house publicly all available QTL and single-nucleotide polymorphism/gene association data on livestock animal species. This collection references cattle QTLs.", "created": "2019-06-11T14:17:35.485+0000", "modified": "2019-06-11T14:17:35.485+0000", "resources": [{"id": 1430, "mirId": "MIR:00100645", "urlPattern": "https://www.animalgenome.org/QTLdb/q?id=QTL_ID:{$id}", "name": "Animal QTL Cattle at Iowa State University", "description": "Animal QTL Cattle at Iowa State University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "4685", "resourceHomeUrl": "https://www.animalgenome.org/QTLdb", "institution": {"id": 1429, "name": "Department of Animal Science and Center for Integrated Animal Genomics, Iowa State University, Iowa", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "4685", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1431, "prefix": "chickenqtldb", "mirId": "MIR:00000505", "name": "Animal Genome Chicken QTL", "pattern": "^\\d+$", "description": "The Animal Quantitative Trait Loci (QTL) database (Animal QTLdb) is designed to house publicly all available QTL and single-nucleotide polymorphism/gene association data on livestock animal species. This collection references chicken QTLs.", "created": "2019-06-11T14:17:35.752+0000", "modified": "2019-06-11T14:17:35.752+0000", "resources": [{"id": 1432, "mirId": "MIR:00100646", "urlPattern": "https://www.animalgenome.org/QTLdb/q?id=QTL_ID:{$id}", "name": "Animal QTL Chicken at Iowa State University", "description": "Animal QTL Chicken at Iowa State University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "14362", "resourceHomeUrl": "https://www.animalgenome.org/QTLdb", "institution": {"id": 1429, "name": "Department of Animal Science and Center for Integrated Animal Genomics, Iowa State University, Iowa", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "14362", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1433, "prefix": "pigqtldb", "mirId": "MIR:00000506", "name": "Animal Genome Pig QTL", "pattern": "^\\d+$", "description": "The Animal Quantitative Trait Loci (QTL) database (Animal QTLdb) is designed to house publicly all available QTL and single-nucleotide polymorphism/gene association data on livestock animal species. This collection references pig QTLs.", "created": "2019-06-11T14:17:35.969+0000", "modified": "2019-06-11T14:17:35.969+0000", "resources": [{"id": 1434, "mirId": "MIR:00100647", "urlPattern": "https://www.animalgenome.org/QTLdb/q?id=QTL_ID:{$id}", "name": "Animal QTL Pig at Iowa State University", "description": "Animal QTL Pig at Iowa State University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "14", "resourceHomeUrl": "https://www.animalgenome.org/QTLdb", "institution": {"id": 1429, "name": "Department of Animal Science and Center for Integrated Animal Genomics, Iowa State University, Iowa", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "14", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1435, "prefix": "sheepqtldb", "mirId": "MIR:00000507", "name": "Animal Genome Sheep QTL", "pattern": "^\\d+$", "description": "The Animal Quantitative Trait Loci (QTL) database (Animal QTLdb) is designed to house publicly all available QTL and single-nucleotide polymorphism/gene association data on livestock animal species. This collection references sheep QTLs.", "created": "2019-06-11T14:17:36.183+0000", "modified": "2019-06-11T14:17:36.183+0000", "resources": [{"id": 1436, "mirId": "MIR:00100648", "urlPattern": "https://www.animalgenome.org/QTLdb/q?id=QTL_ID:{$id}", "name": "Animal QTL Sheep at Iowa State University", "description": "Animal QTL Sheep at Iowa State University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "19803", "resourceHomeUrl": "https://www.animalgenome.org/QTLdb", "institution": {"id": 1429, "name": "Department of Animal Science and Center for Integrated Animal Genomics, Iowa State University, Iowa", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "19803", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1439, "prefix": "mgnify.samp", "mirId": "MIR:00000510", "name": "MGnify Sample", "pattern": "^[A-Z]+[0-9]+$", "description": "The EBI Metagenomics service is an automated pipeline for the analysis and archiving of metagenomic data that aims to provide insights into the phylogenetic diversity as well as the functional and metabolic potential of a sample. Metagenomics is the study of all genomes present in any given environment without the need for prior individual identification or amplification. This collection references samples.", "created": "2019-06-11T14:17:36.594+0000", "modified": "2019-06-11T14:17:36.594+0000", "resources": [{"id": 1440, "mirId": "MIR:00100656", "urlPattern": "https://www.ebi.ac.uk/metagenomics/samples/{$id}", "name": "MGnify Sample", "description": "MGnify Sample", "official": false, "providerCode": "ebi", "sampleId": "SRS086444", "resourceHomeUrl": "https://www.ebi.ac.uk/metagenomics", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "SRS086444", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1441, "prefix": "ega.study", "mirId": "MIR:00000511", "name": "European Genome-phenome Archive Study", "pattern": "^EGAS\\d{11}$", "description": "The EGA is a service for permanent archiving and sharing of all types of personally identifiable genetic and phenotypic data resulting from biomedical research projects. The EGA contains exclusive data collected from individuals whose consent agreements authorize data release only for specific research use or to bona fide researchers. Strict protocols govern how information is managed, stored and distributed by the EGA project. This collection references 'Studies' which are experimental investigations of a particular phenomenon, often drawn from different datasets.", "created": "2019-06-11T14:17:36.823+0000", "modified": "2019-06-11T14:17:36.823+0000", "resources": [{"id": 1442, "mirId": "MIR:00100657", "urlPattern": "https://www.ebi.ac.uk/ega/studies/{$id}", "name": "EGA Study at European Bioinformatics Institute", "description": "EGA Study at European Bioinformatics Institute", "official": true, "providerCode": "ebi", "sampleId": "EGAS00000000001", "resourceHomeUrl": "https://www.ebi.ac.uk/ega/studies", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}, {"id": 1443, "mirId": "MIR:00100851", "urlPattern": "https://www.omicsdi.org/dataset/ega/{$id}", "name": "EGA Study through OmicsDI", "description": "EGA Study through OmicsDI", "official": false, "providerCode": "omicsdi", "sampleId": "EGAS00000000001", "resourceHomeUrl": "https://www.omicsdi.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EGAS00000000001", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1444, "prefix": "ega.dataset", "mirId": "MIR:00000512", "name": "European Genome-phenome Archive Dataset", "pattern": "^EGAD\\d{11}$", "description": "The EGA is a service for permanent archiving and sharing of all types of personally identifiable genetic and phenotypic data resulting from biomedical research projects. The EGA contains exclusive data collected from individuals whose consent agreements authorize data release only for specific research use or to bona fide researchers. Strict protocols govern how information is managed, stored and distributed by the EGA project. This collection references 'Datasets'.", "created": "2019-06-11T14:17:37.233+0000", "modified": "2019-06-11T14:17:37.233+0000", "resources": [{"id": 1445, "mirId": "MIR:00100658", "urlPattern": "https://www.ebi.ac.uk/ega/datasets/{$id}", "name": "EGA Dataset at European Bioinformatics Institute", "description": "EGA Dataset at European Bioinformatics Institute", "official": true, "providerCode": "ebi", "sampleId": "EGAD00000000001", "resourceHomeUrl": "https://www.ebi.ac.uk/ega/dataset", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}, {"id": 1446, "mirId": "MIR:00100852", "urlPattern": "https://www.omicsdi.org/dataset/ega/{$id}", "name": "EGA Dataset through OmicsDI", "description": "EGA Dataset through OmicsDI", "official": false, "providerCode": "omicsdi", "sampleId": "EGAD00000000001", "resourceHomeUrl": "https://www.omicsdi.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EGAD00000000001", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1453, "prefix": "pride.project", "mirId": "MIR:00000515", "name": "PRIDE Project", "pattern": "^P(X|R)D\\d{6}$", "description": "The PRIDE PRoteomics IDEntifications database is a centralized, standards compliant, public data repository that provides protein and peptide identifications together with supporting evidence. This collection references projects.", "created": "2019-06-11T14:17:38.030+0000", "modified": "2019-06-11T14:17:38.030+0000", "resources": [{"id": 1454, "mirId": "MIR:00100662", "urlPattern": "https://www.ebi.ac.uk/pride/archive/projects/{$id}", "name": "PRIDE Project at EBI", "description": "PRIDE Project at EBI", "official": true, "providerCode": "ebi", "sampleId": "PXD000440", "resourceHomeUrl": "https://www.ebi.ac.uk/pride/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}, {"id": 1455, "mirId": "MIR:00100858", "urlPattern": "https://www.omicsdi.org/dataset/pride/{$id}", "name": "PRIDE Project through OmicsDI", "description": "PRIDE Project through OmicsDI", "official": false, "providerCode": "omicsdi", "sampleId": "PXD000440", "resourceHomeUrl": "https://www.omicsdi.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "PXD000440", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1456, "prefix": "antibodyregistry", "mirId": "MIR:00000516", "name": "Antibody Registry", "pattern": "^\\d{6}$", "description": "The Antibody Registry provides identifiers for antibodies used in publications. It lists commercial antibodies from numerous vendors, each assigned with a unique identifier. Unlisted antibodies can be submitted by providing the catalog number and vendor information.", "created": "2019-06-11T14:17:38.379+0000", "modified": "2019-06-11T14:17:38.379+0000", "resources": [{"id": 1458, "mirId": "MIR:00100664", "urlPattern": "http://antibodyregistry.org/AB_{$id}", "name": "Antibody Registry at University of California", "description": "Antibody Registry at University of California", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "493771", "resourceHomeUrl": "http://antibodyregistry.org/", "institution": {"id": 1457, "name": "Neuroscience Information Framework, University of California, San Diego, California", "homeUrl": "https://neuinfo.org/", "description": "The Neuroscience Information Framework is a dynamic inventory of Web-based neuroscience resources: data, materials, and tools accessible via any computer connected.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "493771", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1459, "prefix": "mamo", "mirId": "MIR:00000517", "name": "Mathematical Modelling Ontology", "pattern": "^MAMO_\\d{7}$", "description": "The Mathematical Modelling Ontology (MAMO) is a classification of the types of mathematical models used mostly in the life sciences, their variables, relationships and other relevant features.", "created": "2019-06-11T14:17:38.625+0000", "modified": "2019-06-11T14:17:38.625+0000", "resources": [{"id": 1460, "mirId": "MIR:00100665", "urlPattern": "http://bioportal.bioontology.org/ontologies/MAMO/?p=classes&conceptid=http://identifiers.org/mamo/{$id}", "name": "MAMO through BioPortal", "description": "MAMO through BioPortal", "official": false, "providerCode": "bptl", "sampleId": "MAMO_0000026", "resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/MAMO", "institution": {"id": 5, "name": "National Center for Biomedical Ontology, Stanford", "homeUrl": "https://ncbo.bioontology.org/", "description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 1461, "mirId": "MIR:00100758", "urlPattern": "https://www.ebi.ac.uk/ols/ontologies/mamo/terms?short_form={$id}", "name": "MaMO through OLS", "description": "MaMO through OLS", "official": false, "providerCode": "ols", "sampleId": "MAMO_0000026", "resourceHomeUrl": "https://www.ebi.ac.uk/ols/ontologies/mamo", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MAMO_0000026", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1462, "prefix": "eo", "mirId": "MIR:00000518", "name": "Plant Environment Ontology", "pattern": "^(P)?EO\\:\\d{7}$", "description": "The Plant Environment Ontology is a set of standardized controlled vocabularies to describe various types of treatments given to an individual plant / a population or a cultured tissue and/or cell type sample to evaluate the response on its exposure. It also includes the study types, where the terms can be used to identify the growth study facility. Each growth facility such as field study, growth chamber, green house etc is a environment on its own it may also involve instances of biotic and abiotic environments as supplemental treatments used in these studies.", "created": "2019-06-11T14:17:38.985+0000", "modified": "2019-06-11T14:17:38.985+0000", "resources": [{"id": 1463, "mirId": "MIR:00100667", "urlPattern": "http://archive.gramene.org/db/ontology/search?query=EO:{$id}", "name": "Plant Environment Ontology through Gramene", "description": "Plant Environment Ontology through Gramene", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "0007404", "resourceHomeUrl": "http://archive.gramene.org/db/ontology/search_term?id=EO:0007359", "institution": {"id": 556, "name": "Cold Spring Harbor Laboratory, New York", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 1464, "mirId": "MIR:00100668", "urlPattern": "http://purl.bioontology.org/ontology/PECO/EO:{$id}", "name": "Plant Environment Ontology through BioPortal", "description": "Plant Environment Ontology through BioPortal", "official": false, "providerCode": "bptl", "sampleId": "0007404", "resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/PECO", "institution": {"id": 5, "name": "National Center for Biomedical Ontology, Stanford", "homeUrl": "https://ncbo.bioontology.org/", "description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 1465, "mirId": "MIR:00100669", "urlPattern": "https://www.ebi.ac.uk/ols/ontologies/eo/terms?obo_id=EO:{$id}", "name": "Plant Environment Ontology through OLS", "description": "Plant Environment Ontology through OLS", "official": false, "providerCode": "ols", "sampleId": "0007404", "resourceHomeUrl": "https://www.ebi.ac.uk/ols/ontologies/eo", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0007404", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1466, "prefix": "idot", "mirId": "MIR:00000519", "name": "Identifiers.org Terms", "pattern": "^[A-Za-z]+$", "description": "Identifiers.org Terms (idot) is an RDF vocabulary providing useful terms for describing datasets.", "created": "2019-06-11T14:17:39.487+0000", "modified": "2019-06-11T14:17:39.487+0000", "resources": [{"id": 1467, "mirId": "MIR:00100670", "urlPattern": "https://biomodels.net/vocab/idot.rdf#{$id}", "name": "IdoT via biomodels.net", "description": "IdoT via biomodels.net", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "identifierPattern", "resourceHomeUrl": "https://identifiers.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "identifierPattern", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1470, "prefix": "yeastintron", "mirId": "MIR:00000521", "name": "Yeast Intron Database v4.3", "pattern": "^[A-Z0-9]+$", "description": "The YEast Intron Database (version 4.3) contains information on the spliceosomal introns of the yeast Saccharomyces cerevisiae. It includes expression data that relates to the efficiency of splicing relative to other processes in strains of yeast lacking nonessential splicing factors. The data are displayed on each intron page. This is an updated version of the previous dataset, which can be accessed through [MIR:00000460].", "created": "2019-06-11T14:17:39.906+0000", "modified": "2019-06-11T14:17:39.906+0000", "resources": [{"id": 1471, "mirId": "MIR:00100673", "urlPattern": "http://intron.ucsc.edu/cgi-bin/yeast4.3/intronreports.pl?outputformat=full&orfName={$id}", "name": "Yeast Intron Database version 4.3 at Baskin School of Engineering", "description": "Yeast Intron Database version 4.3 at Baskin School of Engineering", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "SNR17A", "resourceHomeUrl": "http://intron.ucsc.edu/yeast4.3/", "institution": {"id": 1319, "name": "University of California, Santa Cruz", "homeUrl": "https://www.ucsc.edu", "description": "UC Santa Cruz opened in 1965 with 650 students. During the 2018-2019 academic year, 16,983 undergraduate and 1,822 graduate students were enrolled.\n", "rorId": "https://ror.org/03s65by71", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "SNR17A", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1472, "prefix": "ardb", "mirId": "MIR:00000522", "name": "Antibiotic Resistance Genes Database", "pattern": "^[A-Z_]{3}[0-9]{4,}$", "description": "The Antibiotic Resistance Genes Database (ARDB) is a manually curated database which characterises genes involved in antibiotic resistance. Each gene and resistance type is annotated with information, including resistance profile, mechanism of action, ontology, COG and CDD annotations, as well as external links to sequence and protein databases. This collection references resistance genes.", "created": "2019-06-11T14:17:40.104+0000", "modified": "2019-06-11T14:17:40.104+0000", "resources": [{"id": 1474, "mirId": "MIR:00100678", "urlPattern": "http://ardb.cbcb.umd.edu/cgi/search.cgi?db=L&field=ni&term={$id}", "name": "ARDB at University of Maryland", "description": "ARDB at University of Maryland", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "CAE46076", "resourceHomeUrl": "http://ardb.cbcb.umd.edu/", "institution": {"id": 1473, "name": "Center for Bioinformatics and Computational Biology, University of Maryland, Maryland", "homeUrl": "https://www.cbcb.umd.edu/", "description": "The University of Maryland Center for Bioinformatics and Computational Biology is a multidisciplinary center dedicated to research on questions arising from the genome revolution. CBCB brings together scientists and engineers from many fields, including computer science, molecular biology, genomics, genetics, mathematics, statistics, and physics, all of whom share a common interest in gaining a better understanding of how life works. The Center for Bioinformatics and Computational Biology is organized as a center within the University of Maryland Institute for Advanced Computer Studies (UMIACS), an interdisciplinary research institute supporting high-impact computing research across the College Park campus. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "CAE46076", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1475, "prefix": "proteomicsdb.protein", "mirId": "MIR:00000524", "name": "ProteomicsDB Protein", "pattern": "^\\d+$", "description": "ProteomicsDB is an effort dedicated to expedite the identification of the human proteome and its use across the scientific community. This human proteome data is assembled primarily using information from liquid chromatography tandem-mass-spectrometry (LC-MS/MS) experiments involving human tissues, cell lines and body fluids. Information is accessible for individual proteins, or on the basis of protein coverage on the encoding chromosome, and for peptide components of a protein. This collection provides access to individual proteins.", "created": "2019-06-11T14:17:40.344+0000", "modified": "2019-06-11T14:17:40.344+0000", "resources": [{"id": 1477, "mirId": "MIR:00100680", "urlPattern": "https://www.proteomicsdb.org/#human/proteinDetails/{$id}/summary", "name": "Proteomics DB Protein at Center for Integrated Protein Science", "description": "Proteomics DB Protein at Center for Integrated Protein Science", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "53504", "resourceHomeUrl": "https://www.proteomicsdb.org/#human", "institution": {"id": 1476, "name": "Center for Integrated Protein Science, Munich,", "homeUrl": "https://www.cipsm.de/", "description": "CIPSM brings together internationally recognized scientists in the Munich area from the two leading Universities in Germany, LMU, and TUM, as well as from the neighboring Max Planck Institutes and the Helmholtz society. CISPM forms an umbrella under which the individual research facilities can develop their expertise jointly to form a center of scientific gravity in southern Germany. The Center will strengthen existing expertise by hiring new research groups to work on complementary aspects. These measures will catalyze the transition from classical protein science scattered over the Munich region to a new systemic protein science that is expected to dominate research in the molecular life sciences beyond the funding period.", "rorId": null, "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "53504", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1478, "prefix": "proteomicsdb.peptide", "mirId": "MIR:00000525", "name": "ProteomicsDB Peptide", "pattern": "^\\d+$", "description": "ProteomicsDB is an effort dedicated to expedite the identification of the human proteome and its use across the scientific community. This human proteome data is assembled primarily using information from liquid chromatography tandem-mass-spectrometry (LC-MS/MS) experiments involving human tissues, cell lines and body fluids. Information is accessible for individual proteins, or on the basis of protein coverage on the encoding chromosome, and for peptide components of a protein. This collection provides access to the peptides identified for a given protein.", "created": "2019-06-11T14:17:40.583+0000", "modified": "2019-06-11T14:17:40.583+0000", "resources": [{"id": 1480, "mirId": "MIR:00100681", "urlPattern": "https://www.proteomicsdb.org/#human/proteinDetails/{$id}/peptides/", "name": "Proteomics DB Peptide at Center for Integrated Protein Science", "description": "Proteomics DB Peptide at Center for Integrated Protein Science", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "53504", "resourceHomeUrl": "https://www.proteomicsdb.org/#peptideSearch", "institution": {"id": 1479, "name": "Center for Integrated Protein Science, Munich", "homeUrl": "https://www.cipsm.de/", "description": "CIPSM brings together internationally recognized scientists in the Munich area from the two leading Universities in Germany, LMU, and TUM, as well as from the neighboring Max Planck Institutes and the Helmholtz society. CISPM forms an umbrella under which the individual research facilities can develop their expertise jointly to form a center of scientific gravity in southern Germany. The Center will strengthen existing expertise by hiring new research groups to work on complementary aspects. These measures will catalyze the transition from classical protein science scattered over the Munich region to a new systemic protein science that is expected to dominate research in the molecular life sciences beyond the funding period.", "rorId": "https://ror.org/032hzb643", "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "53504", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1481, "prefix": "hpm.protein", "mirId": "MIR:00000526", "name": "Human Proteome Map Protein", "pattern": "^\\d+$", "description": "The Human Proteome Map (HPM) portal integrates the peptide sequencing result from the draft map of the human proteome project. The project was based on LC-MS/MS by utilizing of high resolution and high accuracy Fourier transform mass spectrometry. The HPM contains direct evidence of translation of a number of protein products derived from human genes, based on peptide identifications of multiple organs/tissues and cell types from individuals with clinically defined healthy tissues. The HPM portal provides data on individual proteins, as well as on individual peptide spectra. This collection references proteins.", "created": "2019-06-11T14:17:40.825+0000", "modified": "2019-06-11T14:17:40.825+0000", "resources": [{"id": 1482, "mirId": "MIR:00100682", "urlPattern": "http://www.humanproteomemap.org/protein.php?hpm_id={$id}", "name": "Human Proteome Map Protein at Institute of Bioinformatics (Bangalore)", "description": "Human Proteome Map Protein at Institute of Bioinformatics (Bangalore)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1968", "resourceHomeUrl": "http://www.humanproteomemap.org/index.php", "institution": {"id": 1087, "name": "Institute of Bioinformatics, International Tech Park, Bangalore", "homeUrl": "http://www.ibioinformatics.org/", "description": "The Institute of Bioinformatics is a not-for-profit organization engaged in research in Bioinformatics. This institute is located in Bangalore, India and was established in May 2002. Bangalore is a prime center for research and development and is the hub of information technology in India. The Institute of Bioinformatics emphasizes cutting edge research in Databases, Computational Genomics, Proteomics Comparative Genomics, Metabolomics and Lipidomics. The initial goal of this Institute was to create a freely available Human Protein Reference Database using open source technologies and to experimentally verify predicted human genes using molecular biology and proteomics-based methods.", "rorId": "https://ror.org/04hqfvm50", "location": {"countryCode": "IN", "countryName": "India"}}, "location": {"countryCode": "IN", "countryName": "India"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1968", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1483, "prefix": "hpm.peptide", "mirId": "MIR:00000527", "name": "Human Proteome Map Peptide", "pattern": "^\\d+$", "description": "The Human Proteome Map (HPM) portal integrates the peptide sequencing result from the draft map of the human proteome project. The project was based on LC-MS/MS by utilizing of high resolution and high accuracy Fourier transform mass spectrometry. The HPM contains direct evidence of translation of a number of protein products derived from human genes, based on peptide identifications of multiple organs/tissues and cell types from individuals with clinically defined healthy tissues. The HPM portal provides data on individual proteins, as well as on individual peptide spectra. This collection references individual peptides through spectra.", "created": "2019-06-11T14:17:41.032+0000", "modified": "2019-06-11T14:17:41.032+0000", "resources": [{"id": 1484, "mirId": "MIR:00100683", "urlPattern": "http://www.humanproteomemap.org/spectrum.php?pep_id={$id}", "name": "Human Proteome Map Peptide at Institute of Bioinformatics (Bangalore)", "description": "Human Proteome Map Peptide at Institute of Bioinformatics (Bangalore)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "9606117", "resourceHomeUrl": "http://www.humanproteomemap.org/index.php", "institution": {"id": 1087, "name": "Institute of Bioinformatics, International Tech Park, Bangalore", "homeUrl": "http://www.ibioinformatics.org/", "description": "The Institute of Bioinformatics is a not-for-profit organization engaged in research in Bioinformatics. This institute is located in Bangalore, India and was established in May 2002. Bangalore is a prime center for research and development and is the hub of information technology in India. The Institute of Bioinformatics emphasizes cutting edge research in Databases, Computational Genomics, Proteomics Comparative Genomics, Metabolomics and Lipidomics. The initial goal of this Institute was to create a freely available Human Protein Reference Database using open source technologies and to experimentally verify predicted human genes using molecular biology and proteomics-based methods.", "rorId": "https://ror.org/04hqfvm50", "location": {"countryCode": "IN", "countryName": "India"}}, "location": {"countryCode": "IN", "countryName": "India"}, "deprecated": false, "deprecationDate": null}], "sampleId": "9606117", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1485, "prefix": "drugbankv4.target", "mirId": "MIR:00000528", "name": "DrugBank Target v4", "pattern": "^BE\\d{7}$", "description": "The DrugBank database is a bioinformatics and chemoinformatics resource that combines detailed drug (i.e. chemical, pharmacological and pharmaceutical) data with comprehensive drug target (i.e. sequence, structure, and pathway) information. This collection references target information from version 4 of the database.", "created": "2019-06-11T14:17:41.273+0000", "modified": "2019-06-11T14:17:41.273+0000", "resources": [{"id": 1487, "mirId": "MIR:00100687", "urlPattern": "http://www.drugbank.ca/biodb/bio_entities/{$id}", "name": "DrugBank Target information version 4", "description": "DrugBank Target information version 4", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "BE0000048", "resourceHomeUrl": "http://www.drugbank.ca/targets", "institution": {"id": 1486, "name": "Departments of Computing Science, Biological Sciences, University of Alberta", "homeUrl": "https://www.ualberta.ca/index.html", "description": "We are a Top 5 Canadian university and one of the Top 150 in the world. Find out what makes our student experience so rich, meaningful and life-changing.", "rorId": null, "location": {"countryCode": "CA", "countryName": "Canada"}}, "location": {"countryCode": "CA", "countryName": "Canada"}, "deprecated": false, "deprecationDate": null}], "sampleId": "BE0000048", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1488, "prefix": "zinc", "mirId": "MIR:00000529", "name": "ZINC", "pattern": "^(ZINC)?\\d+$", "description": "ZINC is a free public resource for ligand discovery. The database contains over twenty million commercially available molecules in biologically relevant representations that may be downloaded in popular ready-to-dock formats and subsets. The Web site enables searches by structure, biological activity, physical property, vendor, catalog number, name, and CAS number.", "created": "2019-06-11T14:17:41.559+0000", "modified": "2019-06-11T14:17:41.559+0000", "resources": [{"id": 1490, "mirId": "MIR:00100688", "urlPattern": "http://zinc15.docking.org/substances/{$id}", "name": "ZINC at University of California (San Francisco)", "description": "ZINC at University of California (San Francisco)", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "ZINC1084", "resourceHomeUrl": "http://zinc15.docking.org/", "institution": {"id": 1489, "name": "Shoichet Laboratory, Department of Pharmaceutical Chemistry, University of California, San Francisco", "homeUrl": "https://bkslab.org/home", "description": "The Shoichet lab seeks to bring chemical reagents to biology, combining computation and experiment. In a protein-centric approach, molecular docking, we discover new ligands that complement protein structures. Using a ligand-centric approach, we discover new targets for known drugs and reagents. A focus for both is the discovery of reagents to modulate G-Protein Coupled Receptors (GPCRs). ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ZINC1084", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1491, "prefix": "foodb.compound", "mirId": "MIR:00000530", "name": "FooDB Compound", "pattern": "^FDB\\d+$", "description": "FooDB is resource on food and its constituent compounds. It includes data on the compound\u2019s nomenclature, its description, information on its structure, chemical class, its physico-chemical data, its food source(s), its color, its aroma, its taste, its physiological effect, presumptive health effects (from published studies), and concentrations in various foods. This collection references compounds.", "created": "2019-06-11T14:17:41.796+0000", "modified": "2019-06-11T14:17:41.796+0000", "resources": [{"id": 1492, "mirId": "MIR:00100689", "urlPattern": "http://foodb.ca/compounds/{$id}", "name": "FooDB database of food additives at University of Alberta", "description": "FooDB database of food additives at University of Alberta", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "FDB002100", "resourceHomeUrl": "http://foodb.ca/foods", "institution": {"id": 334, "name": "University of Alberta", "homeUrl": "https://www.ualberta.ca", "description": "The University of Alberta in Edmonton is one of Canada's top teaching and research universities, with an international reputation for excellence across the humanities, sciences, creative arts, business, engineering and health sciences.", "rorId": "https://ror.org/0160cpw27", "location": {"countryCode": "CA", "countryName": "Canada"}}, "location": {"countryCode": "CA", "countryName": "Canada"}, "deprecated": false, "deprecationDate": null}], "sampleId": "FDB002100", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1493, "prefix": "unii", "mirId": "MIR:00000531", "name": "UNII", "pattern": "^[A-Z0-9]+$", "description": "The purpose of the joint FDA/USP Substance Registration System (SRS) is to support health information technology initiatives by generating unique ingredient identifiers (UNIIs) for substances in drugs, biologics, foods, and devices. The UNII is a non- proprietary, free, unique, unambiguous, non semantic, alphanumeric identifier based on a substance\u2019s molecular structure and/or descriptive information.", "created": "2019-06-11T14:17:41.988+0000", "modified": "2019-06-11T14:17:41.988+0000", "resources": [{"id": 1494, "mirId": "MIR:00100690", "urlPattern": "http://fdasis.nlm.nih.gov/srs/srsdirect.jsp?regno={$id}", "name": "UNII at U.S. Food and Drug Administration", "description": "UNII at U.S. Food and Drug Administration", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "3G6A5W338E", "resourceHomeUrl": "http://fdasis.nlm.nih.gov/srs/", "institution": {"id": 1238, "name": "U.S. Food and Drug Administration, Maryland", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 3441, "mirId": "MIR:00000990", "urlPattern": "https://precision.fda.gov/uniisearch/srs/unii/{$id}", "name": "United States Food and Drug Administration", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/034xvzb47' with Wikidata IDs [Q204711], and ISNI IDs [0000 0001 2243 3366]", "official": true, "providerCode": "fda", "sampleId": "3G6A5W338E", "resourceHomeUrl": "https://precision.fda.gov/uniisearch", "institution": {"id": 3440, "name": "United States Food and Drug Administration", "homeUrl": "https://www.fda.gov/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/034xvzb47' with Wikidata IDs [Q204711], and ISNI IDs [0000 0001 2243 3366]", "rorId": "https://ror.org/034xvzb47", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "3G6A5W338E", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1495, "prefix": "orphanet.ordo", "mirId": "MIR:00000532", "name": "Orphanet Rare Disease Ontology", "pattern": "^Orphanet(_|:)C?\\d+$", "description": "The Orphanet Rare Disease ontology (ORDO) is a structured vocabulary for rare diseases, capturing relationships between diseases, genes and other relevant features which will form a useful resource for the computational analysis of rare diseases.\r\nIt integrates a nosology (classification of rare diseases), relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, UMLS, MedDRA), databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) and classifications (ICD10).", "created": "2019-06-11T14:17:42.194+0000", "modified": "2019-06-11T14:17:42.194+0000", "resources": [{"id": 1496, "mirId": "MIR:00100705", "urlPattern": "https://www.ebi.ac.uk/ols/ontologies/ordo/terms?short_form={$id}", "name": "ORDO via OLS", "description": "ORDO via OLS", "official": true, "providerCode": "ols", "sampleId": "Orphanet_C023", "resourceHomeUrl": "https://www.ebi.ac.uk/ols/ontologies/ordo", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Orphanet_C023", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1497, "prefix": "psipar", "mirId": "MIR:00000533", "name": "Protein Affinity Reagents", "pattern": "^PAR:\\d+$", "description": "Protein Affinity Reagents (PSI-PAR) provides a structured controlled vocabulary for the annotation of experiments concerned with interactions, and interactor production methods. PAR is developed by the HUPO Proteomics Standards Initiative and contains the majority of the terms from the PSI-MI controlled vocabular, as well as additional terms.", "created": "2019-06-11T14:17:42.461+0000", "modified": "2019-06-11T14:17:42.461+0000", "resources": [{"id": 1498, "mirId": "MIR:00100709", "urlPattern": "https://www.ebi.ac.uk/ontology-lookup/?termId={$id}", "name": "Protein Affinity Reagents through OLS", "description": "Protein Affinity Reagents through OLS", "official": false, "providerCode": "ols", "sampleId": "PAR:0116", "resourceHomeUrl": "https://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=PAR", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "PAR:0116", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1499, "prefix": "clinvar.record", "mirId": "MIR:00000534", "name": "ClinVar Record", "pattern": "^RCV\\d+(\\.\\d+)?$", "description": "ClinVar archives reports of relationships among medically important variants and phenotypes. It records human variation, interpretations of the relationship specific variations to human health, and supporting evidence for each interpretation. Each ClinVar record (RCV identifier) represents an aggregated view of interpretations of the same variation and condition from one or more submitters. Submissions for individual variation/phenotype combinations (SCV identifier) are also collected and made available separately. This collection references the Record Report, based on RCV accession.", "created": "2019-06-11T14:17:42.685+0000", "modified": "2019-06-11T14:17:42.685+0000", "resources": [{"id": 1501, "mirId": "MIR:00100710", "urlPattern": "http://www.ncbi.nlm.nih.gov/clinvar/{$id}/", "name": "ClinVar Record at NCBI", "description": "ClinVar Record at NCBI", "official": false, "providerCode": "ncbi", "sampleId": "RCV000033555.3", "resourceHomeUrl": "http://www.ncbi.nlm.nih.gov/clinvar/", "institution": {"id": 26, "name": "National Center for Biotechnology Information", "homeUrl": "https://www.ncbi.nlm.nih.gov/", "description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.", "rorId": "https://ror.org/02meqm098", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "RCV000033555.3", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1502, "prefix": "mgnify.proj", "mirId": "MIR:00000535", "name": "MGnify Project", "pattern": "^[A-Z]+[0-9]+$", "description": "MGnify is a resource for the analysis and archiving of microbiome data to help determine the taxonomic diversity and functional & metabolic potential of environmental samples. Users can submit their own data for analysis or freely browse all of the analysed public datasets held within the repository. In addition, users can request analysis of any appropriate dataset within the European Nucleotide Archive (ENA). User-submitted or ENA-derived datasets can also be assembled on request, prior to analysis.", "created": "2019-06-11T14:17:42.938+0000", "modified": "2019-06-11T14:17:42.938+0000", "resources": [{"id": 1503, "mirId": "MIR:00100711", "urlPattern": "https://www.ebi.ac.uk/metagenomics/projects/{$id}", "name": "MGnify Project", "description": "MGnify Project", "official": false, "providerCode": "ebi", "sampleId": "ERP004492", "resourceHomeUrl": "https://www.ebi.ac.uk/metagenomics", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ERP004492", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1504, "prefix": "euclinicaltrials", "mirId": "MIR:00000536", "name": "EU Clinical Trials", "pattern": "^\\d{4}\\-\\d{6}\\-\\d{2}$", "description": "The EU Clinical Trials Register contains information on clinical trials conducted in the European Union (EU), or the European Economic Area (EEA) which started after 1 May 2004.\r\nIt also includes trials conducted outside these areas if they form part of a paediatric investigation plan (PIP), or are sponsored by a marketing authorisation holder, and involve the use of a medicine in the paediatric population.", "created": "2019-06-11T14:17:43.129+0000", "modified": "2019-06-11T14:17:43.129+0000", "resources": [{"id": 1506, "mirId": "MIR:00100712", "urlPattern": "https://www.clinicaltrialsregister.eu/ctr-search/search?query={$id}", "name": "EU Clinical Trials at European Medicines Agency", "description": "EU Clinical Trials at European Medicines Agency", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2008-005144-16", "resourceHomeUrl": "https://www.clinicaltrialsregister.eu/", "institution": {"id": 1505, "name": "European Medicines Agency", "homeUrl": "http://www.ema.europa.eu/ema/", "description": "EMA guarantees the scientific evaluation, supervision & safety monitoring of human & veterinary medicines in the EU.", "rorId": "https://ror.org/01z0wsw92", "location": {"countryCode": "NL", "countryName": "Netherlands"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2008-005144-16", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1507, "prefix": "google.patent", "mirId": "MIR:00000537", "name": "Google Patents", "pattern": "^[A-Z]{2}\\d+([A-Z])?$", "description": "Google Patents covers the entire collection of granted patents and published patent applications from the USPTO, EPO, and WIPO. 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This collection references model compartments.", "created": "2019-06-11T14:17:47.621+0000", "modified": "2019-06-11T14:17:47.621+0000", "resources": [{"id": 1554, "mirId": "MIR:00100732", "urlPattern": "http://bigg.ucsd.edu/compartments/{$id}", "name": "BiGG Compartment at University of California", "description": "BiGG Compartment at University of California", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "c", "resourceHomeUrl": "http://bigg.ucsd.edu/compartments/", "institution": {"id": 190, "name": "University of California, San Diego", "homeUrl": "https://ucsd.edu/", "description": "is a public research university in San Diego, California.\nEstablished in 1960 near the pre-existing Scripps Institution of Oceanography, UC San Diego is the seventh-oldest of the 10 University of California campuses and offers over 200 undergraduate and graduate degree programs, enrolling approximately 30,000 undergraduate and 8,500 graduate students.", "rorId": "https://ror.org/0168r3w48", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "c", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1537, "prefix": "wikidata", "mirId": "MIR:00000549", "name": "Wikidata", "pattern": "^(Q|P)\\d+$", "description": "Wikidata is a collaboratively edited knowledge base operated by the Wikimedia Foundation. It is intended to provide a common source of certain types of data which can be used by Wikimedia projects such as Wikipedia. Wikidata functions as a document-oriented database, centred on individual items. Items represent topics, for which basic information is stored that identifies each topic.", "created": "2019-06-11T14:17:46.087+0000", "modified": "2020-11-30T14:15:44.647+0000", "resources": [{"id": 1538, "mirId": "MIR:00100726", "urlPattern": "http://www.wikidata.org/entity/{$id}", "name": "Wikidata at Wikimedia Foundation", "description": "Wikidata at Wikimedia Foundation", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Q2207226", "resourceHomeUrl": "https://www.wikidata.org/", "institution": {"id": 1111, "name": "Wikimedia Foundation, San Francisco, California", "homeUrl": "https://wikimediafoundation.org/", "description": "The nonprofit Wikimedia Foundation provides the essential infrastructure for free knowledge. We host Wikipedia, the free online encyclopedia, created, edited, and verified by volunteers around the world, as well as many other vital community projects. All of which is made possible thanks to donations from individuals like you. We welcome anyone who shares our vision to join us in collecting and sharing knowledge that fully represents human diversity.", "rorId": "https://ror.org/032q98j12", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Q2207226", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1557, "prefix": "bigg.reaction", "mirId": "MIR:00000557", "name": "BiGG Reaction", "pattern": "^[a-z_A-Z0-9]+$", "description": "BiGG is a knowledgebase of Biochemically, Genetically and Genomically structured genome-scale metabolic network reconstructions. It more published genome-scale metabolic networks into a single database with a set of stardized identifiers called BiGG IDs. Genes in the BiGG models are mapped to NCBI genome annotations, and metabolites are linked to many external databases (KEGG, PubChem, and many more). This collection references reactions.", "created": "2019-06-11T14:17:48.059+0000", "modified": "2019-06-11T14:17:48.059+0000", "resources": [{"id": 1558, "mirId": "MIR:00100734", "urlPattern": "http://bigg.ucsd.edu/models/universal/reactions/{$id}", "name": "BiGG Reaction at University of California", "description": "BiGG Reaction at University of California", "official": false, "providerCode": "ucsd", "sampleId": "13GS", "resourceHomeUrl": "http://bigg.ucsd.edu/universal/reactions", "institution": {"id": 190, "name": "University of California, San Diego", "homeUrl": "https://ucsd.edu/", "description": "is a public research university in San Diego, California.\nEstablished in 1960 near the pre-existing Scripps Institution of Oceanography, UC San Diego is the seventh-oldest of the 10 University of California campuses and offers over 200 undergraduate and graduate degree programs, enrolling approximately 30,000 undergraduate and 8,500 graduate students.", "rorId": "https://ror.org/0168r3w48", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "13GS", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1561, "prefix": "umls", "mirId": "MIR:00000559", "name": "UMLS", "pattern": "^C\\d+$", "description": "The Unified Medical Language System is a repository of biomedical vocabularies. Vocabularies integrated in the UMLS Metathesaurus include the NCBI taxonomy, Gene Ontology, the Medical Subject Headings (MeSH), OMIM and the Digital Anatomist Symbolic Knowledge Base. UMLS concepts are not only inter-related, but may also be linked to external resources such as GenBank.", "created": "2019-06-11T14:17:48.502+0000", "modified": "2019-06-11T14:17:48.502+0000", "resources": [{"id": 1562, "mirId": "MIR:00100736", "urlPattern": "http://linkedlifedata.com/resource/umls/id/{$id}", "name": "Unified Medical Language System at LinkedLifeData", "description": "Unified Medical Language System at LinkedLifeData", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "C0021390", "resourceHomeUrl": "http://linkedlifedata.com/", "institution": {"id": 63, "name": "Linkedlifedata, Ontotext, Sofia", "homeUrl": "http://linkedlifedata.com/", "description": "Linked Life Data (LLD) is a data-as-a-service platform that provides access to 25 public biomedical databases through a single access point. The service allows writing of complex data analytical queries, answering complex bioinformatics questions such as 'give me all human genes located in Y-chromosome with the known molecular interactions'; simply navigate through the information, or export subsets like 'all approved drugs and their brand names'. ", "rorId": null, "location": {"countryCode": "BG", "countryName": "Bulgaria"}}, "location": {"countryCode": "BG", "countryName": "Bulgaria"}, "deprecated": false, "deprecationDate": null}], "sampleId": "C0021390", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1567, "prefix": "mirtarbase", "mirId": "MIR:00000562", "name": "miRTarBase", "pattern": "^MIRT\\d{6}$", "description": "miRTarBase is a database of miRNA-target interactions (MTIs), collected manually from relevant literature, following Natural Language Processing of the text to identify research articles related to functional studies of miRNAs. Generally, the collected MTIs are validated experimentally by reporter assay, western blot, microarray and next-generation sequencing experiments.", "created": "2019-06-11T14:17:49.171+0000", "modified": "2019-06-11T14:17:49.171+0000", "resources": [{"id": 1569, "mirId": "MIR:00100739", "urlPattern": "http://mirtarbase.mbc.nctu.edu.tw/php/detail.php?mirtid={$id}", "name": "miRTarBase at National Chiao Tung University", "description": "miRTarBase at National Chiao Tung University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "MIRT000002", "resourceHomeUrl": "http://mirtarbase.mbc.nctu.edu.tw/", "institution": {"id": 1568, "name": "Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu", "homeUrl": "http://bioinfo.nctu.edu.tw/", "description": "The NCTU Institute of Bioinformatics and Systems Biology carries out research in structural bioinformatics, systems biology (e.g. gene networks and metabolic pathways), drug discovery, biological databases and algorithms, molecular evolution, computational chemistry, and functional genomics. Supporting by National Science Council and Ministry of Education, the Institute has installed the sole Structural Bioinformatics and Computer-aided Drug Design Core Facilities. On average, each faculty publishes 5 papers/year and the sum of impact factor is over 20/year; and the grant is over 3,000,000/year. These Principle Investigators have produced renowned computational packages and databases: GEMDOCK, for drug design; 3D-BLAST, for a super fast structure database search; miRNAMap, genomic maps of microRNAs in mammalian genomes; and CELLO, for sub-cellular localization prediction.", "rorId": null, "location": {"countryCode": "TW", "countryName": "Taiwan, Province of China"}}, "location": {"countryCode": "TW", "countryName": "Taiwan, Province of China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MIRT000002", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1570, "prefix": "meddra", "mirId": "MIR:00000563", "name": "MedDRA", "pattern": "^\\d+$", "description": "The Medical Dictionary for Regulatory Activities (MedDRA) was developed by the International Council for Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use (ICH)to provide a standardised medical terminology to facilitate sharing of regulatory information internationally for medical products used by humans. It is used within regulatory processes, safety monitoring, as well as for marketing activities. Products covered by the scope of MedDRA include pharmaceuticals, biologics, vaccines and drug-device combination products. The MedDRA dictionary is organized by System Organ Class (SOC), divided into High-Level Group Terms (HLGT), High-Level Terms (HLT), Preferred Terms (PT) and finally into Lowest Level Terms (LLT).", "created": "2019-06-11T14:17:49.428+0000", "modified": "2019-06-11T14:17:49.428+0000", "resources": [{"id": 1571, "mirId": "MIR:00100740", "urlPattern": "http://purl.bioontology.org/ontology/MEDDRA/{$id}", "name": "MedDRA through BioPortal", "description": "MedDRA through BioPortal", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "10015919", "resourceHomeUrl": "http://bioportal.bioontology.org/ontologies/MEDDRA", "institution": {"id": 5, "name": "National Center for Biomedical Ontology, Stanford", "homeUrl": "https://ncbo.bioontology.org/", "description": "The goal of the National Center for Biomedical Ontology is to support biomedical researchers in their knowledge-intensive work, by providing online tools and a Web portal enabling them to access, review, and integrate disparate ontological resources in all aspects of biomedical investigation and clinical practice. A major focus of our work involves the use of biomedical ontologies to aid in the management and analysis of data derived from complex experiments.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "10015919", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1572, "prefix": "dashr", "mirId": "MIR:00000564", "name": "DASHR", "pattern": "^(hsa-(let|mir)-\\w+(-\\w+)?)|(piR-\\d+)|(chr\\w+.tRNA\\d+-\\w+)|(chr\\w+.tRNA\\d+-\\w+-tRF\\d)|((SNORD|SNORA|ACA|HBII|HBI|U)(-)?\\w+)|(HY\\d\\+(-L\\d+)?)|((LSU|SSU|5S)(-rRNA_Hsa)?(-L\\d+)?)$", "description": "DASHR reports the annotation, expression and evidence for specific RNA processing (cleavage specificity scores/entropy) of human sncRNA genes, precursor and mature sncRNA products across different human tissues and cell types. DASHR integrates information from multiple existing annotation resources for small non-coding RNAs, including microRNAs (miRNAs), Piwi-interacting (piRNAs), small nuclear (snRNAs), nucleolar (snoRNAs), cytoplasmic (scRNAs), transfer (tRNAs), tRNA fragments (tRFs), and ribosomal RNAs (rRNAs). These datasets were obtained from non-diseased human tissues and cell types and were generated for studying or profiling small non-coding RNAs. This collection references RNA records.", "created": "2019-06-11T14:17:49.634+0000", "modified": "2019-06-11T14:17:49.634+0000", "resources": [{"id": 1574, "mirId": "MIR:00100741", "urlPattern": "http://lisanwanglab.org/DASHR/entry/{$id}", "name": "DASHR at University of Pennsylvania", "description": "DASHR at University of Pennsylvania", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "hsa-mir-200a", "resourceHomeUrl": "http://lisanwanglab.org/DASHR/", "institution": {"id": 1573, "name": "Department of Pathology and Laboratory Medicine, University of Pennsylvania, Philadelphia", "homeUrl": "https://pathology.med.upenn.edu/", "description": "Combining the full gamut of possible activities found within academic pathology departments, the Department has solidified its national reputation as one of the leading, fully integrated academic departments of its kind. It has also positioned itself at the crossroads of the intellectual life at Penn, as the home to many of the School of Medicine\u2019s centralized resource laboratories and with substantive ties to multiple centers, institutes, departments and other schools on campus.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "hsa-mir-200a", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1575, "prefix": "dashr.expression", "mirId": "MIR:00000565", "name": "DASHR expression", "pattern": "^(hsa-(let|mir)-\\w+(-\\w+)?)|(piR-\\d+)|(chr\\w+.tRNA\\d+-\\w+)|(chr\\w+.tRNA\\d+-\\w+-tRF\\d)|((SNORD|SNORA|ACA|HBII|HBI|U)(-)?\\w+)|(HY\\d\\+(-L\\d+)?)|((LSU|SSU|5S)(-rRNA_Hsa)?(-L\\d+)?)$", "description": "DASHR reports the annotation, expression and evidence for specific RNA processing (cleavage specificity scores/entropy) of human sncRNA genes, precursor and mature sncRNA products across different human tissues and cell types. DASHR integrates information from multiple existing annotation resources for small non-coding RNAs, including microRNAs (miRNAs), Piwi-interacting (piRNAs), small nuclear (snRNAs), nucleolar (snoRNAs), cytoplasmic (scRNAs), transfer (tRNAs), tRNA fragments (tRFs), and ribosomal RNAs (rRNAs). These datasets were obtained from non-diseased human tissues and cell types and were generated for studying or profiling small non-coding RNAs. This collection references RNA expression.", "created": "2019-06-11T14:17:49.866+0000", "modified": "2019-06-11T14:17:49.866+0000", "resources": [{"id": 1576, "mirId": "MIR:00100742", "urlPattern": "https://dashr1.lisanwanglab.org/entry/hsa-mir-200a#{$id}#exprPerTissueTable", "name": "DASHR expression at University of Pennsylvania", "description": "DASHR expression at University of Pennsylvania", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "hsa-mir-200a", "resourceHomeUrl": "https://dashr1.lisanwanglab.org/show-expression-table.php?start=0", "institution": {"id": 1573, "name": "Department of Pathology and Laboratory Medicine, University of Pennsylvania, Philadelphia", "homeUrl": "https://pathology.med.upenn.edu/", "description": "Combining the full gamut of possible activities found within academic pathology departments, the Department has solidified its national reputation as one of the leading, fully integrated academic departments of its kind. It has also positioned itself at the crossroads of the intellectual life at Penn, as the home to many of the School of Medicine\u2019s centralized resource laboratories and with substantive ties to multiple centers, institutes, departments and other schools on campus.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "hsa-mir-200a", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1577, "prefix": "splash", "mirId": "MIR:00000566", "name": "SPLASH", "pattern": "^splash\\d[A-Z-a-z0-9]-[A-Za-z0-9]+-[A-Za-z0-9]+$", "description": "The spectra hash code (SPLASH) is a unique and non-proprietary identifier for spectra, and is independent of how the spectra were acquired or processed. It can be easily calculated for a wide range of spectra, including Mass spectroscopy, infrared spectroscopy, ultraviolet and nuclear magnetic resonance.", "created": "2019-06-11T14:17:50.083+0000", "modified": "2019-06-11T14:17:50.083+0000", "resources": [{"id": 1579, "mirId": "MIR:00100746", "urlPattern": "http://mona.fiehnlab.ucdavis.edu/#/spectra/splash/{$id}", "name": "Mass Bank of North America (MoNA)", "description": "Mass Bank of North America (MoNA)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "splash10-0zq2000000-77302b0326a418630a84", "resourceHomeUrl": "http://mona.fiehnlab.ucdavis.edu/", "institution": {"id": 1578, "name": "University of California, Davis, California", "homeUrl": "https://www.ucdavis.edu/", "description": "UC Davis was founded in 1908 to serve the state of California. We do and we always will. And today, the seed that was planted those years ago has grown into one of the world\u2019s top universities. ", "rorId": "https://ror.org/05rrcem69", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "splash10-0zq2000000-77302b0326a418630a84", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1563, "prefix": "mesh", "mirId": "MIR:00000560", "name": "MeSH", "pattern": "^(C|D)\\d{6,9}$", "description": "MeSH (Medical Subject Headings) is the National Library of Medicine's controlled vocabulary thesaurus. It consists of sets of terms naming descriptors in a hierarchical structure that permits searching at various levels of specificity. This thesaurus is used by NLM for indexing articles from biomedical journals, cataloguing of books, documents, etc.", "created": "2019-06-11T14:17:48.752+0000", "modified": "2020-04-21T17:40:51.334+0000", "resources": [{"id": 1564, "mirId": "MIR:00100737", "urlPattern": "http://id.nlm.nih.gov/mesh/{$id}", "name": "MeSH Linked Data at National Library of Medicine", "description": "MeSH Linked Data at National Library of Medicine", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "C000100", "resourceHomeUrl": "http://id.nlm.nih.gov/mesh/", "institution": {"id": 792, "name": "U.S. National Library of Medicine, National Institute of Health, Maryland", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "C000100", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1580, "prefix": "metanetx.chemical", "mirId": "MIR:00000567", "name": "MetaNetX chemical", "pattern": "^(MNXM\\d+|BIOMASS|WATER)$", "description": "MetaNetX/MNXref integrates various information from genome-scale metabolic network reconstructions such as information on reactions, metabolites and compartments. This information undergoes a reconciliation process to minimise for discrepancies between different data sources, and makes the data accessible under a common namespace. This collection references chemical or metabolic components.", "created": "2019-06-11T14:17:50.332+0000", "modified": "2021-02-26T09:36:59.253+0000", "resources": [{"id": 1582, "mirId": "MIR:00100748", "urlPattern": "https://www.metanetx.org/chem_info/{$id}", "name": "MetaNetX chemical at SIB Swiss Institute of Bioinformatics", "description": "MetaNetX chemical at SIB Swiss Institute of Bioinformatics", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "MNXM1723", "resourceHomeUrl": "https://www.metanetx.org/", "institution": {"id": 1581, "name": "Vital-IT group, SIB Swiss Institute of Bioinformatics, Lausanne", "homeUrl": "https://www.vital-it.ch/", "description": "Vital-IT is a Competency Centre in Bioinformatics and Computational Biology that provides support and technological R&D for life science and clinical research in Switzerland and internationally.", "rorId": null, "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MNXM1723", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1583, "prefix": "metanetx.reaction", "mirId": "MIR:00000568", "name": "MetaNetX reaction", "pattern": "^(MNXR\\d+|EMPTY)$", "description": "MetaNetX/MNXref integrates various information from genome-scale metabolic network reconstructions such as information on reactions, metabolites and compartments. This information undergoes a reconciliation process to minimise for discrepancies between different data sources, and makes the data accessible under a common namespace. This collection references reactions.", "created": "2019-06-11T14:17:50.605+0000", "modified": "2021-02-26T09:43:13.847+0000", "resources": [{"id": 1584, "mirId": "MIR:00100749", "urlPattern": "https://www.metanetx.org/equa_info/{$id}", "name": "MetaNetX reaction at SIB Swiss Institute of Bioinformatics", "description": "MetaNetX reaction at SIB Swiss Institute of Bioinformatics", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "MNXR101574", "resourceHomeUrl": "https://www.metanetx.org/", "institution": {"id": 1581, "name": "Vital-IT group, SIB Swiss Institute of Bioinformatics, Lausanne", "homeUrl": "https://www.vital-it.ch/", "description": "Vital-IT is a Competency Centre in Bioinformatics and Computational Biology that provides support and technological R&D for life science and clinical research in Switzerland and internationally.", "rorId": null, "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MNXR101574", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1565, "prefix": "emdb", "mirId": "MIR:00000561", "name": "Electron Microscopy Data Bank", "pattern": "^EMD-\\d{4,5}$", "description": "The Electron Microscopy Data Bank (EMDB) is a public repository for electron microscopy density maps of macromolecular complexes and subcellular structures. It covers a variety of techniques, including single-particle analysis, electron tomography, and electron (2D) crystallography. The EMDB map distribution format follows the CCP4 definition, which is widely recognized by software packages used by the structural biology community.", "created": "2019-06-11T14:17:48.947+0000", "modified": "2023-02-20T08:55:04.411+0000", "resources": [{"id": 1566, "mirId": "MIR:00100738", "urlPattern": "https://www.ebi.ac.uk/pdbe/entry/emdb/{$id}", "name": "EMDB at Protein Data Bank in Europe", "description": "EMDB at Protein Data Bank in Europe", "official": false, "providerCode": "ebi", "sampleId": "EMD-1001", "resourceHomeUrl": "https://www.ebi.ac.uk/pdbe/emdb/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EMD-1001", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1587, "prefix": "unipathway.reaction", "mirId": "MIR:00000570", "name": "UniPathway Reaction", "pattern": "^UCR\\d{5}$", "description": "UniPathway is a manually curated resource of enzyme-catalyzed and spontaneous chemical reactions. It provides a hierarchical representation of metabolic pathways and a controlled vocabulary for pathway annotation in UniProtKB. UniPathway data are cross-linked to existing metabolic resources such as ChEBI/Rhea, KEGG and MetaCyc. This collection references individual reactions.", "created": "2019-06-11T14:17:51.017+0000", "modified": "2019-06-11T14:17:51.017+0000", "resources": [{"id": 1588, "mirId": "MIR:00100752", "urlPattern": "http://www.grenoble.prabi.fr/obiwarehouse/unipathway/ucr?upid={$id}", "name": "UniPathway Reaction at Swiss Institute of Bioinformatics (SIB)", "description": "UniPathway Reaction at Swiss Institute of Bioinformatics (SIB)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "UCR00226", "resourceHomeUrl": "http://www.grenoble.prabi.fr/obiwarehouse/unipathway", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": true, "deprecationDate": "2019-10-01T12:11:20.049+0000"}], "sampleId": "UCR00226", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1589, "prefix": "hp", "mirId": "MIR:00000571", "name": "Human Phenotype Ontology", "pattern": "^HP:\\d{7}$", "description": "The Human Phenotype Ontology (HPO) aims to provide a standardized vocabulary of phenotypic abnormalities encountered in human disease. Each term in the HPO describes a phenotypic abnormality, such as atrial septal defect. 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SASBDB provides freely accessible and downloadable experimental data, which are deposited together with the relevant experimental conditions, sample details, derived models and their fits to the data.", "created": "2019-06-11T14:17:51.650+0000", "modified": "2019-06-11T14:17:51.650+0000", "resources": [{"id": 1595, "mirId": "MIR:00100763", "urlPattern": "http://www.sasbdb.org/data/{$id}", "name": "SASBDB at European Molecular Biology Laboratory", "description": "SASBDB at European Molecular Biology Laboratory", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "SASDAX8", "resourceHomeUrl": "http://www.sasbdb.org/", "institution": {"id": 1594, "name": "European Molecular Biology Lab Hamburg Outstation", "homeUrl": "https://www.embl-hamburg.de", "description": "EMBL is an intergovernmental organisation specialising in basic research in the life sciences, funded by public research monies from more than 20 member states, including much of Europe and Israel, and two associate members, Argentina and Australia. 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STORE supports the creation of a low dose radiation research commons.", "created": "2019-06-11T14:17:53.021+0000", "modified": "2019-06-11T14:17:53.021+0000", "resources": [{"id": 1608, "mirId": "MIR:00100771", "urlPattern": "https://www.storedb.org/?{$id}", "name": "STOREDB at University of Cambridge", "description": "STOREDB at University of Cambridge", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "STOREDB:STUDY1040", "resourceHomeUrl": "https://www.storedb.org/", "institution": {"id": 1607, "name": "University of Cambridge, Department of Physiology, Downing Street, Cambridge", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "STOREDB:STUDY1040", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1609, "prefix": "kegg", "mirId": "MIR:00000578", "name": "Kyoto Encyclopedia of Genes and Genomes", "pattern": "^([CHDEGTMKR]\\d+)|(\\w+:[\\w\\d\\.-]*)|([a-z]{3,5})|(\\w{2,4}\\d{5})$", "description": "Kyoto Encyclopedia of Genes and Genomes (KEGG) is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies.", "created": "2019-06-11T14:17:53.298+0000", "modified": "2019-06-11T14:17:53.298+0000", "resources": [{"id": 1610, "mirId": "MIR:00100773", "urlPattern": "http://www.kegg.jp/entry/{$id}", "name": "KEGG at Kyoto University Bioinformatics Center", "description": "KEGG at Kyoto University Bioinformatics Center", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "hsa00190", "resourceHomeUrl": "http://www.kegg.jp/", "institution": {"id": 15, "name": "Kyoto University Bioinformatics Center", "homeUrl": "https://www.bic.kyoto-u.ac.jp/", "description": "The Bioinformatics Center aims at developing new informatics technologies for deciphering the genome, especially from the viewpoint of how life operates as a system, and promoting both basic and applied research areas in bioinformatics. 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It stands near to the Yuanmingyuan Garden and the Summer Palace.\nPeking University is proud of its outstanding faculty, including 48 members of the Chinese Academy of Sciences (CAS), 9 members of the Chinese Academy of Engineering (CAE), and 21 members of the Third World Academy of Sciences (TWAS).", "rorId": "https://ror.org/02v51f717", "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Ath_AT1G01030.1", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1614, "prefix": "mp", "mirId": "MIR:00000580", "name": "Mammalian Phenotype Ontology", "pattern": "^MP:\\d{7}$", "description": "The Mammalian Phenotype Ontology (MP) classifies and organises phenotypic information related to the mouse and other mammalian species. 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DANDI will provide: 1) A cloud platform for neurophysiology data storage for the purposes of collaboration and dissemination of data; 2) Easy to use tools for neurophysiology data submission, visualization, and access in the archive; and 3) Standardized applications for data ingestion, visualization and processing, which facilitate adoption of NWB and other standards. These data will help scientists uncover and understand cellular level mechanisms of brain function. Scientists will study the formation of neural networks, how cells and networks enable functions such as learning and memory, and how these functions are disrupted in neurological disorders.", "official": true, "providerCode": "dandi", "sampleId": "000017", "resourceHomeUrl": "https://dandiarchive.org/", "institution": {"id": 2167, "name": "Massachusetts Institute of Technology", "homeUrl": "http://web.mit.edu/", "description": "Founded to accelerate the nation\u2019s industrial revolution, MIT is profoundly American. With ingenuity and drive, our graduates have invented fundamental technologies, launched new industries, and created millions of American jobs. At the same time, and without the slightest sense of contradiction, MIT is profoundly global(opens in new window). Our community gains tremendous strength as a magnet for talent from around the world. Through teaching, research, and innovation, MIT\u2019s exceptional community pursues its mission of service to the nation and the world.", "rorId": "https://ror.org/042nb2s44", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "000017", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3271, "prefix": "ror", "mirId": "MIR:00000961", "name": "ROR", "pattern": "^0[a-hj-km-np-tv-z|0-9]{6}[0-9]{2}$", "description": "ROR (Research Organization Registry) is a global, community-led registry\nof open persistent identifiers for research organizations. ROR is jointly\noperated by California Digital Library, Crossref, and Datacite.", "created": "2022-08-15T19:28:35.707+0000", "modified": "2022-08-18T13:14:34.725+0000", "resources": [{"id": 3272, "mirId": "MIR:00001056", "urlPattern": "https://ror.org/{$id}", "name": "ROR", "description": "ROR (Research Organization Registry) is a global, community-led registry of open persistent identifiers for research organizations. ", "official": true, "providerCode": "ror", "sampleId": "03yrm5c26", "resourceHomeUrl": "https://ror.org", "institution": {"id": 3270, "name": "California Digital Library", "homeUrl": "https://www.cdlib.org/", "description": "The CDL was founded by the University of California in 1997 to take advantage of emerging technologies that were transforming the way digital information was being published and accessed. Since then, in collaboration with the UC libraries and other partners, we assembled one of the world\u2019s largest digital research libraries and changed the ways that faculty, students, and researchers discover and access information.", "rorId": "", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "03yrm5c26", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3292, "prefix": "clb", "mirId": "MIR:00000964", "name": "ChecklistBank", "pattern": "^[0-9]+(LR)?$", "description": "ChecklistBank is an index and repository for taxonomic and nomenclatural datasets", "created": "2022-11-03T14:17:05.019+0000", "modified": "2022-11-03T14:17:05.019+0000", "resources": [{"id": 3293, "mirId": "MIR:00000963", "urlPattern": "https://www.checklistbank.org/dataset/{$id}", "name": "ChecklistBank", "description": "ChecklistBank at GBIF. Codeveloped with the Catalogue of Life", "official": true, "providerCode": "clb", "sampleId": "1010", "resourceHomeUrl": "https://www.checklistbank.org", "institution": {"id": 3291, "name": "Global Biodiversity Information Facility", "homeUrl": "https://www.gbif.org/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fjyn938' with Wikidata IDs [Q1531570], and no ISNI information", "rorId": "https://ror.org/05fjyn938", "location": {"countryCode": "DK", "countryName": "Denmark"}}, "location": {"countryCode": "DK", "countryName": "Denmark"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1010", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3298, "prefix": "drugcentral", "mirId": "MIR:00000966", "name": "DrugCentral", "pattern": "^[0-9]+$", "description": "DrugCentral (http://drugcentral.org) is an open-access online drug compendium. DrugCentral integrates structure, bioactivity, regulatory, pharmacologic actions and indications for active pharmaceutical ingredients approved by FDA and other regulatory agencies. Monitoring of regulatory agencies for new drugs approvals ensures the resource is up-to-date. DrugCentral integrates content for active ingredients with pharmaceutical formulations, indexing drugs and drug label annotations, complementing similar resources available online. Its complementarity with other online resources is facilitated by cross referencing to external resources. At the molecular level, DrugCentral bridges drug-target interactions with pharmacological action and indications. The integration with FDA drug labels enables text mining applications for drug adverse events and clinical trial information. Chemical structure overlap between DrugCentral and five online drug resources, and the overlap between DrugCentral FDA-approved drugs and their presence in four different chemical collections, are discussed. DrugCentral can be accessed via the web application or downloaded in relational database format.", "created": "2022-11-04T09:54:32.976+0000", "modified": "2022-11-04T09:54:32.976+0000", "resources": [{"id": 3299, "mirId": "MIR:00000965", "urlPattern": "https://drugcentral.org/drugcard/{$id}", "name": "University of New Mexico", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fs6jp91' with Wikidata IDs [Q1190812], and ISNI IDs [0000 0001 2188 8502]", "official": true, "providerCode": "drugcentral", "sampleId": "257", "resourceHomeUrl": "http://www.unm.edu/", "institution": {"id": 3297, "name": "University of New Mexico", "homeUrl": "http://www.unm.edu/", "description": "Founded in 1889 as New Mexico\u2019s flagship institution, The University of New Mexico now occupies nearly 800 acres near old Route 66 in the heart of Albuquerque, a metropolitan area of more than 900,000 people. 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The nationally recognized campus arboretum and the popular duck pond offer an outstanding botanical experience in the midst of one of New Mexico's great public open spaces.", "rorId": "https://ror.org/05fs6jp91", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "257", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3307, "prefix": "skm", "mirId": "MIR:00000968", "name": "Stress Knowledge Map", "pattern": "^rx[0-9]{5}$", "description": "Stress Knowledge Map (SKM, available at https://skm.nib.si) is a knowledge graph resulting from the integration of dispersed published information on plant molecular responses to biotic and abiotic stressors. ", "created": "2022-11-04T12:17:30.200+0000", "modified": "2022-11-04T12:17:30.200+0000", "resources": [{"id": 3308, "mirId": "MIR:00000967", "urlPattern": "https://skm.nib.si/api/pss/reactions?reaction_id={$id}&return_field=summary", "name": "National Institute of Biology", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/03s5t0r17' with no Wikidata information, and ISNI IDs [0000 0004 0637 0790]", "official": true, "providerCode": "skm", "sampleId": "rx00408", "resourceHomeUrl": "http://www.nib.si/eng/", "institution": {"id": 3306, "name": "National Institute of Biology", "homeUrl": "http://www.nib.si/eng/", "description": "With about 190 employees, National Institute of Biology (NIB) is one of the independent Public Research Institution for Life Sciences in Slovenia. The Institute was established by the Government of the Republic of Slovenia in 1960. The basic activity of the Institute has been and continues to be basic, developmental and applicative research in the fields of biotechnology, biophysics, biomedicine and system biology. ", "rorId": "https://ror.org/03s5t0r17", "location": {"countryCode": "SI", "countryName": "Slovenia"}}, "location": {"countryCode": "SI", "countryName": "Slovenia"}, "deprecated": false, "deprecationDate": null}], "sampleId": "rx00408", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3311, "prefix": "col", "mirId": "MIR:00000969", "name": "Catalogue of Life", "pattern": "^[23456789BCDFGHJKLMNPQRSTVWXYZ]{1,6}$", "description": "Identifier of a taxon or synonym in the Catalogue of Life", "created": "2022-11-04T13:50:22.141+0000", "modified": "2022-11-04T13:50:22.141+0000", "resources": [{"id": 3312, "mirId": "MIR:00000970", "urlPattern": "https://www.checklistbank.org/dataset/3LR/taxon/{$id}", "name": "ChecklistBank", "description": "ChecklistBank, an index and repository for taxonomic data, hosted at GBIF\n", "official": true, "providerCode": "clb", "sampleId": "4QHKG", "resourceHomeUrl": "https://www.checklistbank.org", "institution": {"id": 3291, "name": "Global Biodiversity Information Facility", "homeUrl": "https://www.gbif.org/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fjyn938' with Wikidata IDs [Q1531570], and no ISNI information", "rorId": "https://ror.org/05fjyn938", "location": {"countryCode": "DK", "countryName": "Denmark"}}, "location": {"countryCode": "DK", "countryName": "Denmark"}, "deprecated": false, "deprecationDate": null}, {"id": 3328, "mirId": "MIR:00000971", "urlPattern": "https://www.catalogueoflife.org/data/taxon/{$id}", "name": "Catalogue of Life (COL)", "description": "The Catalogue of Life website providing a view onto the latest release of the COL Checklist.", "official": false, "providerCode": "col", "sampleId": "4QHKG", "resourceHomeUrl": "https://www.catalogueoflife.org", "institution": {"id": 3291, "name": "Global Biodiversity Information Facility", "homeUrl": "https://www.gbif.org/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fjyn938' with Wikidata IDs [Q1531570], and no ISNI information", "rorId": "https://ror.org/05fjyn938", "location": {"countryCode": "DK", "countryName": "Denmark"}}, "location": {"countryCode": "DK", "countryName": "Denmark"}, "deprecated": false, "deprecationDate": null}], "sampleId": "4QHKG", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3355, "prefix": "sciflection", "mirId": "MIR:00000973", "name": "Sciflection", "pattern": "^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$", "description": "Sciflection is a public repository for experiments and associated spectra, usually uploaded from Electronic Lab Notebooks, shared under FAIR conditions", "created": "2022-11-29T12:03:56.649+0000", "modified": "2022-11-29T12:03:56.649+0000", "resources": [{"id": 3356, "mirId": "MIR:00000972", "urlPattern": "https://sciflection.com/{$id}", "name": "Sciformation Consulting GmbH", "description": "Sciformation develops scientific software and integrated lab management solutions, comprising of chemical & hazardous material inventory, electronic lab notebook, analytical data management, literature, device databases and ordering systems. 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The high level of integration helps to gather comprehensive data describing the experiments, i.e. which batches or machinery was employed.", "rorId": null, "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "5ede4273-b26c-4ea4-adb7-3ce294ab3397", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 765, "prefix": "combine.specifications", "mirId": "MIR:00000258", "name": "COMBINE specifications", "pattern": "^\\w+(\\-|\\.|\\w)*$", "description": "The 'COmputational Modeling in BIology' NEtwork (COMBINE) is an initiative to coordinate the development of the various community standards and formats for computational models, initially in Systems Biology and related fields. 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The PANTHER Pathway Component collection references specific classes of molecules that play the same mechanistic role within a pathway, across species. Pathway\r\ncomponents may be proteins, genes/DNA, RNA, or simple molecules. Where the identified component is a protein, DNA, or transcribed RNA, it is associated with protein sequences in the PANTHER protein family trees through manual curation.", "created": "2019-06-11T14:17:16.858+0000", "modified": "2023-01-04T16:32:41.267+0000", "resources": [{"id": 1218, "mirId": "MIR:00100545", "urlPattern": "http://www.pantherdb.org/pathway/pathCatDetail.do?clsAccession={$id}", "name": "PANTHER Pathway Component at USC (Los Angeles)", "description": "PANTHER Pathway Component at USC (Los Angeles)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "P00266", "resourceHomeUrl": "http://www.pantherdb.org/", "institution": {"id": 94, "name": "Keck School of Medicine, University of Southern California", "homeUrl": "https://www.keckmedicine.org/", "description": "Keck Medicine of USC is the University of Southern California\u2019s medical enterprise, one of only two university-based medical systems in the Los Angeles area. Keck Medicine combines academic excellence, world-class research and state-of-the-art facilities to provide highly specialized care for some of the most acute patients in the country. ", "rorId": "https://ror.org/01rq8ck58", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "P00266", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 341, "prefix": "genedb", "mirId": "MIR:00000106", "name": "GeneDB", "pattern": "^[\\w\\d\\.-]*$", "description": "GeneDB is a genome database for prokaryotic and eukaryotic organisms and provides a portal through which data generated by the \"Pathogen Genomics\" group at the Wellcome Trust Sanger Institute and other collaborating sequencing centres can be accessed.", "created": "2019-06-11T14:16:00.951+0000", "modified": "2023-01-05T20:09:01.371+0000", "resources": [{"id": 343, "mirId": "MIR:00100139", "urlPattern": "https://www.genedb.org/gene/{$id}", "name": "GeneDB at Sanger Institute", "description": "GeneDB at Sanger Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "LinJ.20.0070", "resourceHomeUrl": "https://www.genedb.org/", "institution": {"id": 342, "name": "Pathogen Genomics, Sanger Institute and European Bioinformatics Institute", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "LinJ.20.0070", "namespaceEmbeddedInLui": false, "deprecated": true, "deprecationDate": "2023-01-05T20:09:01.370+0000"}, {"id": 220, "prefix": "mge", "mirId": "MIR:00000063", "name": "Aclame", "pattern": "^mge:\\d+$", "description": "ACLAME is a database dedicated to the collection and classification of mobile genetic elements (MGEs) from various sources, comprising all known phage genomes, plasmids and transposons.", "created": "2019-06-11T14:15:49.786+0000", "modified": "2023-01-10T13:18:19.511+0000", "resources": [{"id": 222, "mirId": "MIR:00100091", "urlPattern": "http://aclame.ulb.ac.be/perl/Aclame/Genomes/mge_view.cgi?view=info&id=mge:{$id}", "name": "Aclame database of mobile genetic elements", "description": "Aclame database of mobile genetic elements", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2", "resourceHomeUrl": "http://aclame.ulb.ac.be/", "institution": {"id": 221, "name": "Service de Conformation de Macromol\u00e9cules Biologiques et de Bioinformatique, Universit\u00e9 Libre de Bruxelles", "homeUrl": "https://www.ulb.be/", "description": " Four scientific Nobel Prizes, one Fields Medal, three Wolf Prizes are further evidence of the University's longstanding tradition of excellence. The Universit\u00e9 libre de Bruxelles is an active member of the Research Area: ULB has received HR Excellence in Research award from the EU (EURAXESS) and also EU funding to hire post-doctoral researchers (COFUND program), for example. Over the past few years, it has obtained 49 Grants (24 Starting, 12 Consolidator, 11 Advanced, 1 Synergy and 1 Proof of Concept Grants) from the European Research Area (ERC) to finance research in Medicine, Mathematics, Political Science, Economics, Physics, etc. In addition, the University's Institute for European Studies is recognized as a \u201cJean Monnet European research centre\u201d for its work on European integration.", "rorId": null, "location": {"countryCode": "BE", "countryName": "Belgium"}}, "location": {"countryCode": "BE", "countryName": "Belgium"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2", "namespaceEmbeddedInLui": true, "deprecated": true, "deprecationDate": "2023-01-10T13:18:19.506+0000"}, {"id": 2484, "prefix": "oma.hog", "mirId": "MIR:00000785", "name": "OMA HOGs", "pattern": "^HOG:[0-9]{7}(\\.[0-9a-z.]+)?(_[0-9]+)?$", "description": "Hierarchical orthologous groups predicted by OMA (Orthologous MAtrix) database. 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We project a future-\u200b\u200boriented and innovative image of Switzerland to the world and network our country with the global community. Together with our partners from science, business, politics and society, we rely on the power of teamwork and strive for excellence - in everything we do.", "rorId": "https://ror.org/05a28rw58", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0459895", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1437, "prefix": "gro", "mirId": "MIR:00000508", "name": "Gramene Growth Stage Ontology", "pattern": "^GRO:\\d+$", "description": "Gramene is a comparative genome mapping database for grasses and crop plants. It combines a semi-automatically generated database of cereal genomic and expressed sequence tag sequences, genetic maps, map relations, quantitative trait loci (QTL), and publications, with a curated database of mutants (genes and alleles), molecular markers, and proteins. This collection refers to growth stage ontology information in Gramene.", "created": "2019-06-11T14:17:36.384+0000", "modified": "2023-01-10T16:08:16.467+0000", "resources": [{"id": 1438, "mirId": "MIR:00100649", "urlPattern": "http://www.gramene.org/db/ontology/search?id=GRO:{$id}", "name": "Gramene Growth Stage Ontology at Cold Spring Harbor", "description": "Gramene Growth Stage Ontology at Cold Spring Harbor", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "0007133", "resourceHomeUrl": "http://www.gramene.org/", "institution": {"id": 556, "name": "Cold Spring Harbor Laboratory, New York", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0007133", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 3369, "prefix": "tair.name", "mirId": "MIR:00000976", "name": "TAIR gene name", "pattern": "^AT.G[0-9]{5}$", "description": "The Arabidopsis Information Resource (TAIR) maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana. 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VERSION: '0.1.180', + VERSION: '0.1.181', LANGUAGE: 'en', COLLAPSE_INDEX: false, BUILDER: 'html', diff --git a/docs/about.html b/docs/about.html index 6b3bb703..75d97153 100644 --- a/docs/about.html +++ b/docs/about.html @@ -8,7 +8,7 @@ - About BioSimulators utils — BioSimulators utils 0.1.180 documentation + About BioSimulators utils — BioSimulators utils 0.1.181 documentation diff --git a/docs/genindex.html b/docs/genindex.html index 35ab8634..39815d38 100644 --- a/docs/genindex.html +++ b/docs/genindex.html @@ -7,7 +7,7 @@ - Index — BioSimulators utils 0.1.180 documentation + Index — BioSimulators utils 0.1.181 documentation diff --git a/docs/index.html b/docs/index.html index a1a7716e..954f2a6e 100644 --- a/docs/index.html +++ b/docs/index.html @@ -8,7 +8,7 @@ - BioSimulators utils documentation — BioSimulators utils 0.1.180 documentation + BioSimulators utils documentation — BioSimulators utils 0.1.181 documentation diff --git a/docs/installation.html b/docs/installation.html index 69597c1d..710d1a5c 100644 --- a/docs/installation.html +++ b/docs/installation.html @@ -8,7 +8,7 @@ - Installation instructions — BioSimulators utils 0.1.180 documentation + Installation instructions — BioSimulators utils 0.1.181 documentation diff --git a/docs/py-modindex.html b/docs/py-modindex.html index d94b4578..4011ea96 100644 --- a/docs/py-modindex.html +++ b/docs/py-modindex.html @@ -7,7 +7,7 @@ - Python Module Index — BioSimulators utils 0.1.180 documentation + Python Module Index — BioSimulators utils 0.1.181 documentation diff --git a/docs/search.html b/docs/search.html index e0d892c2..ae95dda3 100644 --- a/docs/search.html +++ b/docs/search.html @@ -6,7 +6,7 @@ - Search - BioSimulators utils 0.1.180 documentation + Search - BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.archive.html b/docs/source/biosimulators_utils.archive.html index de9315c4..a9767862 100644 --- a/docs/source/biosimulators_utils.archive.html +++ b/docs/source/biosimulators_utils.archive.html @@ -8,7 +8,7 @@ - biosimulators_utils.archive package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.archive package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.biosimulations.html b/docs/source/biosimulators_utils.biosimulations.html index 37185ca2..db5404cd 100644 --- a/docs/source/biosimulators_utils.biosimulations.html +++ b/docs/source/biosimulators_utils.biosimulations.html @@ -8,7 +8,7 @@ - biosimulators_utils.biosimulations package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.biosimulations package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.combine.html b/docs/source/biosimulators_utils.combine.html index 17230249..23066718 100644 --- a/docs/source/biosimulators_utils.combine.html +++ b/docs/source/biosimulators_utils.combine.html @@ -8,7 +8,7 @@ - biosimulators_utils.combine package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.combine package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.gh_action.html b/docs/source/biosimulators_utils.gh_action.html index 0f2472c8..0e670639 100644 --- a/docs/source/biosimulators_utils.gh_action.html +++ b/docs/source/biosimulators_utils.gh_action.html @@ -8,7 +8,7 @@ - biosimulators_utils.gh_action package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.gh_action package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.html b/docs/source/biosimulators_utils.html index a7026b02..5a970616 100644 --- a/docs/source/biosimulators_utils.html +++ b/docs/source/biosimulators_utils.html @@ -8,7 +8,7 @@ - biosimulators_utils package — BioSimulators utils 0.1.180 documentation + biosimulators_utils package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.kisao.html b/docs/source/biosimulators_utils.kisao.html index 000c93fb..1050b407 100644 --- a/docs/source/biosimulators_utils.kisao.html +++ b/docs/source/biosimulators_utils.kisao.html @@ -8,7 +8,7 @@ - biosimulators_utils.kisao package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.kisao package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.licensing.html b/docs/source/biosimulators_utils.licensing.html index d0315597..5c09638b 100644 --- a/docs/source/biosimulators_utils.licensing.html +++ b/docs/source/biosimulators_utils.licensing.html @@ -8,7 +8,7 @@ - biosimulators_utils.licensing package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.licensing package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.log.html b/docs/source/biosimulators_utils.log.html index 8ab27b3c..ad0a335f 100644 --- a/docs/source/biosimulators_utils.log.html +++ b/docs/source/biosimulators_utils.log.html @@ -8,7 +8,7 @@ - biosimulators_utils.log package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.log package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.bngl.html b/docs/source/biosimulators_utils.model_lang.bngl.html index 60ff9651..d17d2c1c 100644 --- a/docs/source/biosimulators_utils.model_lang.bngl.html +++ b/docs/source/biosimulators_utils.model_lang.bngl.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang.bngl package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang.bngl package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.cellml.html b/docs/source/biosimulators_utils.model_lang.cellml.html index f09146a0..c363d9e3 100644 --- a/docs/source/biosimulators_utils.model_lang.cellml.html +++ b/docs/source/biosimulators_utils.model_lang.cellml.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang.cellml package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang.cellml package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.html b/docs/source/biosimulators_utils.model_lang.html index 9b66b974..1460154f 100644 --- a/docs/source/biosimulators_utils.model_lang.html +++ b/docs/source/biosimulators_utils.model_lang.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.lems.html b/docs/source/biosimulators_utils.model_lang.lems.html index 30f77865..10b5429d 100644 --- a/docs/source/biosimulators_utils.model_lang.lems.html +++ b/docs/source/biosimulators_utils.model_lang.lems.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang.lems package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang.lems package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.neuroml.html b/docs/source/biosimulators_utils.model_lang.neuroml.html index db19e90a..4e0f150c 100644 --- a/docs/source/biosimulators_utils.model_lang.neuroml.html +++ b/docs/source/biosimulators_utils.model_lang.neuroml.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang.neuroml package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang.neuroml package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.rba.html b/docs/source/biosimulators_utils.model_lang.rba.html index 7baa3f19..2f0d50c2 100644 --- a/docs/source/biosimulators_utils.model_lang.rba.html +++ b/docs/source/biosimulators_utils.model_lang.rba.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang.rba package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang.rba package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.sbml.html b/docs/source/biosimulators_utils.model_lang.sbml.html index f30ad29a..8317df68 100644 --- a/docs/source/biosimulators_utils.model_lang.sbml.html +++ b/docs/source/biosimulators_utils.model_lang.sbml.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang.sbml package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang.sbml package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.smoldyn.html b/docs/source/biosimulators_utils.model_lang.smoldyn.html index 1f467e08..31c8c51e 100644 --- a/docs/source/biosimulators_utils.model_lang.smoldyn.html +++ b/docs/source/biosimulators_utils.model_lang.smoldyn.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang.smoldyn package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang.smoldyn package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.model_lang.xpp.html b/docs/source/biosimulators_utils.model_lang.xpp.html index 2c521c40..7d92d59e 100644 --- a/docs/source/biosimulators_utils.model_lang.xpp.html +++ b/docs/source/biosimulators_utils.model_lang.xpp.html @@ -8,7 +8,7 @@ - biosimulators_utils.model_lang.xpp package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.model_lang.xpp package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.omex_meta.html b/docs/source/biosimulators_utils.omex_meta.html index a4cfb36e..6caba645 100644 --- a/docs/source/biosimulators_utils.omex_meta.html +++ b/docs/source/biosimulators_utils.omex_meta.html @@ -8,7 +8,7 @@ - biosimulators_utils.omex_meta package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.omex_meta package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.ref.html b/docs/source/biosimulators_utils.ref.html index 0a4ee150..3f4cf070 100644 --- a/docs/source/biosimulators_utils.ref.html +++ b/docs/source/biosimulators_utils.ref.html @@ -8,7 +8,7 @@ - biosimulators_utils.ref package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.ref package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.report.html b/docs/source/biosimulators_utils.report.html index d132f5a6..7dfd5def 100644 --- a/docs/source/biosimulators_utils.report.html +++ b/docs/source/biosimulators_utils.report.html @@ -8,7 +8,7 @@ - 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biosimulators_utils.viz.vega.sbgn package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.viz.vega.sbgn package — BioSimulators utils 0.1.181 documentation diff --git a/docs/source/biosimulators_utils.xml.html b/docs/source/biosimulators_utils.xml.html index 330a8419..532f11ae 100644 --- a/docs/source/biosimulators_utils.xml.html +++ b/docs/source/biosimulators_utils.xml.html @@ -8,7 +8,7 @@ - biosimulators_utils.xml package — BioSimulators utils 0.1.180 documentation + biosimulators_utils.xml package — BioSimulators utils 0.1.181 documentation