diff --git a/biosimulators_utils/utils/identifiers_org.json b/biosimulators_utils/utils/identifiers_org.json
index c21802d3..6aaf3a10 100644
--- a/biosimulators_utils/utils/identifiers_org.json
+++ b/biosimulators_utils/utils/identifiers_org.json
@@ -1 +1 @@
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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/{$id}/index.html", "name": "BacMap Genome Map at University of Alberta", "description": "BacMap Genome Map at University of Alberta", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "AP011135", "resourceHomeUrl": "http://bacmap.wishartlab.com/", "institution": {"id": 1037, "name": "Department of Computing Science, Food and Nutritional Science, University of Alberta, Edmonton", "homeUrl": "https://www.ualberta.ca/agricultural-food-nutritional-science/index.html", "description": "The department of Agricultural, Food & Nutritional Science (AFNS) offers research and teachings related to the fields of Animal Science, Food Science and Bioresource, Human Nutrition and Plant Biosystems. AFNS offers undergraduate Bachelor of Science degrees in Agriculture, Animal Health, Agricultural/Food Business Science and Nutrition & Food Science each with a variety of majors. AFNS students can also pursue a course-based or thesis-based Master of Agriculture, Master of Science or a PhD.", "rorId": null, "location": {"countryCode": "CA", "countryName": "Canada"}}, "location": {"countryCode": "CA", "countryName": "Canada"}, "deprecated": false, "deprecationDate": null}], "sampleId": "AP011135", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1205, "prefix": "bgee.family", "mirId": "MIR:00000417", "name": "Bgee family", "pattern": "^(ENSFM|ENSGTV:)\\d+$", "description": "Bgee is a database of gene expression patterns within particular anatomical structures within a species, and between different animal species. This collection refers to expression across species.", "created": "2019-06-11T14:17:15.821+0000", "modified": "2019-06-11T14:17:15.821+0000", "resources": [{"id": 1207, "mirId": "MIR:00100540", "urlPattern": "http://bgee.unil.ch/bgee/bgee?page=gene_family&action=family_details&gene_family_id={$id}", "name": "Bgee at Lausanne", "description": "Bgee at Lausanne", "official": false, "providerCode": "sib", "sampleId": "ENSFM00500000270089", "resourceHomeUrl": "http://bgee.unil.ch/bgee/bgee", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ENSFM00500000270089", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1208, "prefix": "bgee.gene", "mirId": "MIR:00000418", "name": "Bgee gene", "pattern": "^[A-Za-z]+\\d+$", "description": "Bgee is a database to retrieve and compare gene expression patterns in multiple species, produced from multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data). This collection references genes in Bgee.", "created": "2019-06-11T14:17:16.067+0000", "modified": "2019-06-11T14:17:16.067+0000", "resources": [{"id": 1210, "mirId": "MIR:00100541", "urlPattern": "https://bgee.org/?page=gene&gene_id={$id}", "name": "Bgee gene", "description": "Bgee gene", "official": false, "providerCode": "sib", "sampleId": "FBgn0000015", "resourceHomeUrl": "https://bgee.org/", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "FBgn0000015", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1211, "prefix": "bgee.stage", "mirId": "MIR:00000419", "name": "Bgee stage", "pattern": "^(FBvd|XtroDO|HsapDO|MmusDO)\\:\\d+$", "description": "Bgee is a database of gene expression patterns within particular anatomical structures within a species, and between different animal species. 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. This collection refers to anatomical structures.", "created": "2019-06-11T14:17:16.514+0000", "modified": "2019-06-11T14:17:16.514+0000", "resources": [{"id": 1214, "mirId": "MIR:00100543", "urlPattern": "http://bgee.unil.ch/bgee/bgee?page=anatomy&action=organ_details&organ_id={$id}&organ_children=on", "name": "Bgee at Lausanne", "description": "Bgee at Lausanne", "official": false, "providerCode": "sib", "sampleId": "EHDAA:2185", "resourceHomeUrl": "http://bgee.unil.ch/bgee/bgee", "institution": {"id": 1730, "name": "SIB Swiss Institute of Bioinformatics", "homeUrl": "https://www.sib.swiss", "description": "SIB provides bioinformatics services and resources for scientists and clinicians from academia and industry in Switzerland and worldwide.", "rorId": "https://ror.org/002n09z45", "location": {"countryCode": "CH", "countryName": "Switzerland"}}, "location": {"countryCode": "CH", "countryName": "Switzerland"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EHDAA:2185", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1215, "prefix": "biocarta.pathway", "mirId": "MIR:00000421", "name": "BioCarta Pathway", "pattern": "^([hm]\\_)?\\w+Pathway$", "description": "BioCarta is a supplier and distributor of characterized reagents and assays for biopharmaceutical and academic research. It catalogs community produced online maps depicting molecular relationships from areas of active research, generating classical pathways as well as suggestions for new pathways. This collections references pathway maps.", "created": "2019-06-11T14:17:16.688+0000", "modified": "2019-06-11T14:17:16.688+0000", "resources": [{"id": 1216, "mirId": "MIR:00100544", "urlPattern": "https://cgap.nci.nih.gov/Pathways/BioCarta/{$id}", "name": "BioCarta Pathway at NCI", "description": "BioCarta Pathway at NCI", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "h_aktPathway", "resourceHomeUrl": "https://www.biocarta.com/", "institution": {"id": 442, "name": "National Cancer Institute, Center for Bioinformatics, Maryland", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "h_aktPathway", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1219, "prefix": "gmd.profile", "mirId": "MIR:00000423", "name": "Golm Metabolome Database Profile", "pattern": "^([0-9a-fA-F]){8}(-([0-9a-fA-F]){4}){3}-([0-9a-fA-F]){12}$", "description": "Golm Metabolome Database (GMD) provides public access to custom mass spectral libraries, metabolite profiling experiments as well as additional information and tools. 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+{$id}", "name": "SubtiList at Pasteur Institute", "description": "SubtiList at Pasteur Institute", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "BG11523", "resourceHomeUrl": "http://genolist.pasteur.fr/SubtiList/", "institution": {"id": 1245, "name": "Pasteur Institute, Paris", "homeUrl": "http://www.pasteur.fr/en", "description": "The Institut Pasteur is a private, non-profit foundation. 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This collection references quantitative trait loci (qTLs), providing phenotype and disease descriptions, mapping, and strain information as well as links to markers and candidate genes.", "created": "2019-06-11T14:17:23.659+0000", "modified": "2019-06-11T14:17:23.659+0000", "resources": [{"id": 1296, "mirId": "MIR:00100586", "urlPattern": "http://rgd.mcw.edu/rgdweb/report/qtl/main.html?id={$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}$", "description": "WormBase is an online bioinformatics database of the biology and genome of the model organism Caenorhabditis elegans and related nematodes. It is used by the C. elegans research community both as an information resource and as a mode to publish and distribute their results. 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ICEs are conjugative self-transmissible elements that can integrate into and excise from a host chromosome, and can carry likely virulence determinants, antibiotic-resistant factors and/or genes coding for other beneficial traits. It contains details of ICEs found in representatives bacterial species, and which are organised as families. This collection references ICE elements.", "created": "2019-06-11T14:17:27.338+0000", "modified": "2019-06-11T14:17:27.338+0000", "resources": [{"id": 1340, "mirId": "MIR:00100604", "urlPattern": "http://db-mml.sjtu.edu.cn/ICEberg/feature_page.php?ice_id={$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;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+$", "description": "ICEberg (Integrative and conjugative elements) is a database of integrative and conjugative elements (ICEs) found in bacteria. 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This collection references ICE families.", "created": "2019-06-11T14:17:27.601+0000", "modified": "2019-06-11T14:17:27.601+0000", "resources": [{"id": 1343, "mirId": "MIR:00100605", "urlPattern": "http://db-mml.sjtu.edu.cn/ICEberg/browse_result.php?type=fam&fam_id={$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;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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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}$", "description": "JCGGDB (Japan Consortium for Glycobiology and Glycotechnology DataBase) is a database that aims to integrate all glycan-related data held in various repositories in Japan. 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This collection references 'Datasets'.", "created": "2019-06-11T14:17:37.233+0000", "modified": "2019-06-11T14:17:37.233+0000", "resources": [{"id": 1445, "mirId": "MIR:00100658", "urlPattern": "https://www.ebi.ac.uk/ega/datasets/{$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&amp;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&amp;field=ni&amp;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. 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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": null, "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])?$", "description": "Google Patents covers the entire collection of granted patents and published patent applications from the USPTO, EPO, and WIPO. 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As a mechanism that protects new ideas and investments in innovation and creativity, the USPTO is at the cutting edge of the nation's technological progress and achievement.", "created": "2019-06-11T14:17:43.583+0000", "modified": "2019-06-11T14:17:43.583+0000", "resources": [{"id": 1512, "mirId": "MIR:00100715", "urlPattern": "http://patft.uspto.gov/netacgi/nph-Parser?Sect2=PTO1&Sect2=HITOFF&p=1&u=/netahtml/PTO/search-bool.html&r=1&f=G&l=50&d=PALL&RefSrch=yes&Query=PN/{$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": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "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. 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": "HGVST1828", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1518, "prefix": "exac.variant", "mirId": "MIR:00000541", "name": "ExAC Variant", "pattern": "^\\d{1,2}\\-\\d+\\-[GATC]\\-[GATC]$", "description": "The Exome Aggregation Consortium (ExAC) is a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. The data pertains to unrelated individuals sequenced as part of various disease-specific and population genetic studies and serves as a reference set of allele frequencies for severe disease studies. This collection references variant information.", "created": "2019-06-11T14:17:44.275+0000", "modified": "2019-06-11T14:17:44.275+0000", "resources": [{"id": 1520, "mirId": "MIR:00100718", "urlPattern": "http://exac.broadinstitute.org/variant/{$id}", "name": "ExAC Variant at Exome Aggregation Consortium", "description": "ExAC Variant at Exome Aggregation Consortium", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "22-46615880-T-C", "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. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "22-46615880-T-C", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1521, "prefix": "gwascentral.marker", "mirId": "MIR:00000542", "name": "GWAS Central Marker", "pattern": "^HGVM\\d+$", "description": "GWAS Central (previously the Human Genome Variation database of Genotype-to-Phenotype information) is a database of summary level findings from genetic association studies, both large and small. It gathers datasets from public domain projects, and accepts direct data submission. It is based upon Marker information encompassing SNP and variant information from public databases, to which allele and genotype frequency data, and genetic association findings are additionally added. A Study (most generic level) contains one or more Experiments, one or more Sample Panels of test subjects, and one or more Phenotypes. This collection references a GWAS Central Marker.", "created": "2019-06-11T14:17:44.511+0000", "modified": "2019-06-11T14:17:44.511+0000", "resources": [{"id": 1522, "mirId": "MIR:00100719", "urlPattern": "https://www.gwascentral.org/marker/{$id}", "name": "GWAS Central Marker at University of Leicester", "description": "GWAS Central Marker at University of Leicester", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "HGVM15354", "resourceHomeUrl": "https://www.gwascentral.org/markers/", "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. 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]+$", "description": "BiGG is a knowledgebase of Biochemically, Genetically and Genomically structured genome-scale metabolic network reconstructions. It more published genome-scale metabolic networks into a single database with a set of stardized identifiers called BiGG IDs. Genes in the BiGG models are mapped to NCBI genome annotations, and metabolites are linked to many external databases (KEGG, PubChem, and many more). This collection references individual metabolotes.", "created": "2019-06-11T14:17:47.850+0000", "modified": "2019-06-11T14:17:47.850+0000", "resources": [{"id": 1556, "mirId": "MIR:00100733", "urlPattern": "http://bigg.ucsd.edu/models/universal/metabolites/{$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+$", "description": "The HMS LINCS Database currently contains information on experimental reagents (small molecule perturbagens, cells, and proteins). It aims to collect and disseminate information relating to the fundamental principles of cellular response in humans to perturbation. This collection references proteins.", "created": "2019-06-11T14:17:45.145+0000", "modified": "2019-06-11T14:17:45.145+0000", "resources": [{"id": 1529, "mirId": "MIR:00100722", "urlPattern": "http://lincs.hms.harvard.edu/db/proteins/{$id}/", "name": "LINCS Protein at Harvard Medical School", "description": "LINCS Protein at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "200282", "resourceHomeUrl": "http://lincs.hms.harvard.edu/db/proteins/", "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": "200282", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1530, "prefix": "lincs.smallmolecule", "mirId": "MIR:00000546", "name": "LINCS Small Molecule", "pattern": "^LSM-\\d+$", "description": "The Library of Network-Based Cellular Signatures (LINCS) Program aims to create a network-based understanding of biology by cataloging changes in gene expression and other cellular processes that occur when cells are exposed to a variety of perturbing agents. The LINCS small molecule collection is used as perturbagens in LINCS experiments. The small molecule metadata includes substance-specific batch information provided by each LINCS Data and Signature Generation Center (DSGC).", "created": "2019-06-11T14:17:45.396+0000", "modified": "2019-06-11T14:17:45.396+0000", "resources": [{"id": 1532, "mirId": "MIR:00100723", "urlPattern": "http://lincsportal.ccs.miami.edu/SmallMolecules/#/view/{$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}$", "description": "The Exome Aggregation Consortium (ExAC) is a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. The data pertains to unrelated individuals sequenced as part of various disease-specific and population genetic studies and serves as a reference set of allele frequencies for severe disease studies. This collection references transcript information.", "created": "2019-06-11T14:17:45.691+0000", "modified": "2019-06-11T14:17:45.691+0000", "resources": [{"id": 1534, "mirId": "MIR:00100724", "urlPattern": "http://exac.broadinstitute.org/transcript/{$id}", "name": "ExAC Transcript at Exome Aggregation Consortium", "description": "ExAC Transcript at Exome Aggregation Consortium", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ENST00000407236", "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. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ENST00000407236", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1535, "prefix": "exac.gene", "mirId": "MIR:00000548", "name": "ExAC Gene", "pattern": "^ENSG\\d{11}$", "description": "The Exome Aggregation Consortium (ExAC) is a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. The data pertains to unrelated individuals sequenced as part of various disease-specific and population genetic studies and serves as a reference set of allele frequencies for severe disease studies. This collection references gene information.", "created": "2019-06-11T14:17:45.890+0000", "modified": "2019-06-11T14:17:45.890+0000", "resources": [{"id": 1536, "mirId": "MIR:00100725", "urlPattern": "http://exac.broadinstitute.org/gene/{$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. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ENSG00000169174", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1542, "prefix": "unipathway.compound", "mirId": "MIR:00000551", "name": "UniPathway Compound", "pattern": "^UPC\\d{5}$", "description": "UniPathway is a manually curated resource of enzyme-catalyzed and spontaneous chemical reactions. It provides a hierarchical representation of metabolic pathways and a controlled vocabulary for pathway annotation in UniProtKB. UniPathway data are cross-linked to existing metabolic resources such as ChEBI/Rhea, KEGG and MetaCyc. This collection references compounds.", "created": "2019-06-11T14:17:46.612+0000", "modified": "2019-06-11T14:17:46.612+0000", "resources": [{"id": 1544, "mirId": "MIR:00100728", "urlPattern": "http://www.grenoble.prabi.fr/obiwarehouse/unipathway/upc?upid={$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+$", "description": "This cooperative effort, which includes Fellowship for Interpretation of Genomes (FIG), Argonne National Laboratory, and the University of Chicago, focuses on the development of the comparative genomics environment called the SEED. It is a framework to support comparative analysis and annotation of genomes, and the development of curated genomic data (annotation). Curation is performed at the level of subsystems by an expert annotator, across many genomes, and not on a gene by gene basis. This collection references subsystems.", "created": "2019-06-11T14:17:46.875+0000", "modified": "2019-06-11T14:17:46.875+0000", "resources": [{"id": 1547, "mirId": "MIR:00100729", "urlPattern": "https://registry.identifiers.org/deprecation/resources/MIR:00100729/{$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+$", "description": "This cooperative effort, which includes Fellowship for Interpretation of Genomes (FIG), Argonne National Laboratory, and the University of Chicago, focuses on the development of the comparative genomics environment called the SEED. It is a framework to support comparative analysis and annotation of genomes, and the development of curated genomic data (annotation). Curation is performed at the level of subsystems by an expert annotator, across many genomes, and not on a gene by gene basis. This collection references subsystems.", "created": "2019-06-11T14:17:47.133+0000", "modified": "2019-06-11T14:17:47.133+0000", "resources": [{"id": 1549, "mirId": "MIR:00100730", "urlPattern": "http://modelseed.org/biochem/compounds/{$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]+$", "description": "BiGG is a knowledgebase of Biochemically, Genetically and Genomically structured genome-scale metabolic network reconstructions. It more published genome-scale metabolic networks into a single database with a set of stardized identifiers called BiGG IDs. Genes in the BiGG models are mapped to NCBI genome annotations, and metabolites are linked to many external databases (KEGG, PubChem, and many more). This collection references individual models.", "created": "2019-06-11T14:17:47.362+0000", "modified": "2019-06-11T14:17:47.362+0000", "resources": [{"id": 1552, "mirId": "MIR:00100731", "urlPattern": "http://bigg.ucsd.edu/models/{$id}", "name": "BiGG Model at University of California", "description": "BiGG Model at University of California", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "iECABU_c1320", "resourceHomeUrl": "http://bigg.ucsd.edu/models", "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": "iECABU_c1320", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1553, "prefix": "bigg.compartment", "mirId": "MIR:00000555", "name": "BiGG Compartment", "pattern": "^[a-z_A-Z]+$", "description": "BiGG is a knowledgebase of Biochemically, Genetically and Genomically structured genome-scale metabolic network reconstructions. It more published genome-scale metabolic networks into a single database with a set of stardized identifiers called BiGG IDs. Genes in the BiGG models are mapped to NCBI genome annotations, and metabolites are linked to many external databases (KEGG, PubChem, and many more). This collection references model compartments.", "created": "2019-06-11T14:17:47.621+0000", "modified": "2019-06-11T14:17:47.621+0000", "resources": [{"id": 1554, "mirId": "MIR:00100732", "urlPattern": "http://bigg.ucsd.edu/compartments/{$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": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "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+)?)$", "description": "DASHR reports the annotation, expression and evidence for specific RNA processing (cleavage specificity scores/entropy) of human sncRNA genes, precursor and mature sncRNA products across different human tissues and cell types. 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It has also positioned itself at the crossroads of the intellectual life at Penn, as the home to many of the School of Medicine\u2019s centralized resource laboratories and with substantive ties to multiple centers, institutes, departments and other schools on campus.", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "hsa-mir-200a", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1577, "prefix": "splash", "mirId": "MIR:00000566", "name": "SPLASH", "pattern": "^splash\\d[A-Z-a-z0-9]-[A-Za-z0-9]+-[A-Za-z0-9]+$", "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. 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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. 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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. 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Each term in the HPO describes a phenotypic abnormality, such as atrial septal defect. 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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}], "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+$", "description": "The HGNC (HUGO Gene Nomenclature Committee) provides an approved gene name and symbol (short-form abbreviation) for each known human gene. All approved symbols are stored in the HGNC database, and each symbol is unique. 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The dataset group comprises datasets for the same experiment but with different data level results (data processed to a different level).", "created": "2019-06-11T14:17:56.343+0000", "modified": "2019-06-11T14:17:56.343+0000", "resources": [{"id": 1636, "mirId": "MIR:00100785", "urlPattern": "http://lincsportal.ccs.miami.edu/datasets/#/view/{$id}", "name": "LINCS Data at University of Miami", "description": "LINCS Data at University of Miami", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "LDS-1110", "resourceHomeUrl": "http://lincsportal.ccs.miami.edu/datasets/", "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}, {"id": 1637, "mirId": "MIR:00100856", "urlPattern": "https://www.omicsdi.org/dataset/lincs/{$id}", "name": "Lincs through OmicsDI", "description": "Lincs through OmicsDI", "official": false, "providerCode": "omicsdi", "sampleId": "LDS-1110", "resourceHomeUrl": "https://www.omicsdi.org/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "LDS-1110", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1638, "prefix": "agricola", "mirId": "MIR:00000589", "name": "AGRICOLA", "pattern": "^\\d+$", "description": "AGRICOLA (AGRICultural OnLine Access) serves as the catalog and index to the collections of the National Agricultural Library, as well as a primary public source for world-wide access to agricultural information. 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It houses one of the world's largest collections devoted to agriculture and its related sciences.", "rorId": "https://ror.org/00z6b1508", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "50018", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1641, "prefix": "ms", "mirId": "MIR:00000590", "name": "Mass Spectrometry Controlled Vocabulary", "pattern": "^MS:\\d{7}$", "description": "The PSI-Mass Spectrometry (MS) CV contains all the terms used in the PSI MS-related data standards. The CV contains a logical hierarchical structure to ensure ease of maintenance and the development of software that makes use of complex semantics. 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The core content of the record may include names, identifiers used by other databases, mode of inheritance, clinical features, and map location of the loci affecting the disorder.", "created": "2019-06-11T14:17:58.068+0000", "modified": "2019-06-11T14:17:58.068+0000", "resources": [{"id": 1654, "mirId": "MIR:00100794", "urlPattern": "https://www.ncbi.nlm.nih.gov/medgen/{$id}", "name": "MedGen at NCBI", "description": "MedGen at NCBI", "official": false, "providerCode": "ncbi", "sampleId": "760050", "resourceHomeUrl": "https://www.ncbi.nlm.nih.gov/medgen/", "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": "760050", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1655, "prefix": "clinvar.submission", "mirId": "MIR:00000595", "name": "ClinVar Submission", "pattern": "^SCV\\d+(\\.\\d+)?$", "description": "ClinVar archives reports of relationships among medically important variants and phenotypes. 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\nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "00100037", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1669, "prefix": "cosmic", "mirId": "MIR:00000601", "name": "COSMIC Gene", "pattern": "^[A-Z0-9]+$", "description": "COSMIC is a comprehensive global resource for information on somatic mutations in human cancer, combining curation of the scientific literature with tumor resequencing data from the Cancer Genome Project at the Sanger Institute, U.K. This collection references genes.", "created": "2019-06-11T14:17:59.699+0000", "modified": 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The ICDC was established to further research on human cancers by enabling comparative analysis with canine cancer.", "created": "2021-05-10T19:40:34.200+0000", "modified": "2022-03-31T16:55:06.915+0000", "resources": [{"id": 2639, "mirId": "MIR:00000811", "urlPattern": "https://caninecommons.cancer.gov/#/study/{$id}", "name": "Integrated Canine Data Commons", "description": "Integrated Canine Data Commons at National Cancer Institute (USA)", "official": true, "providerCode": "icdc", "sampleId": "000009", "resourceHomeUrl": "https://caninecommons.cancer.gov/#/", "institution": {"id": 2637, "name": "National Cancer Institute", "homeUrl": "https://www.cancer.gov/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/040gcmg81' with Wikidata IDs [Q664846], and ISNI IDs [0000 0004 1936 8075]", "rorId": "https://ror.org/040gcmg81", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "000009", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 361, "prefix": "pdb-ccd", "mirId": "MIR:00000113", "name": "Chemical Component Dictionary", "pattern": "^\\w{1,3}$", "description": "The Chemical Component Dictionary is as an external reference file describing all residue and small molecule components found in Protein Data Bank entries. It contains detailed chemical descriptions for standard and modified amino acids/nucleotides, small molecule ligands, and solvent molecules. Each chemical definition includes descriptions of chemical properties such as stereochemical assignments, aromatic bond assignments, idealized coordinates, chemical descriptors (SMILES & InChI), and systematic chemical names.", "created": "2019-06-11T14:16:03.054+0000", "modified": "2022-05-18T15:48:21.884+0000", "resources": [{"id": 362, "mirId": "MIR:00100146", "urlPattern": "https://www.ebi.ac.uk/pdbe-srv/pdbechem/chemicalCompound/show/{$id}", "name": "Protein Data Bank Chemical Component Dictionary at EBI", "description": "Protein Data Bank Chemical Component Dictionary at EBI", "official": false, "providerCode": "ebi", "sampleId": "AB0", "resourceHomeUrl": "https://www.ebi.ac.uk/pdbe-srv/pdbechem/", "institution": {"id": 2, "name": "European Bioinformatics Institute", "homeUrl": "https://www.ebi.ac.uk", "description": "At EMBL-EBI, we make the world\u2019s public biological data freely available to the scientific community via a range of services and tools, perform basic research and provide professional training in bioinformatics. \nWe are part of the European Molecular Biology Laboratory (EMBL), an international, innovative and interdisciplinary research organisation funded by 26 member states and two associate member states.", "rorId": "https://ror.org/02catss52", "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "AB0", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3252, "prefix": "civic.sid", "mirId": "MIR:00000953", "name": "CIViC Source", "pattern": "^[0-9]+$", "description": "In CIViC, each Evidence Item must be associated with a Source Type and Source ID, which link the Evidence Item to the original source of information supporting clinical claims. Currently, CIViC accepts publications indexed on PubMed OR abstracts published through the American Society of Clinical Oncology (ASCO). Each such source entered into CIViC is assigned a unique identifier and expert curators can curate guidance that assists future curators in the interpretation of information from this source.", "created": "2022-08-08T18:32:17.171+0000", "modified": "2022-08-08T18:32:17.171+0000", "resources": [{"id": 3253, "mirId": "MIR:00000952", "urlPattern": "https://civicdb.org/links/sources/{$id}", "name": "Clinical Interpretation of Variants in Cancer (CIViC)", "description": "CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer.", "official": true, "providerCode": "civicdb", "sampleId": "62", "resourceHomeUrl": "https://civicdb.org/", "institution": {"id": 2750, "name": "Washington University in St. Louis", "homeUrl": "https://wustl.edu/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/01yc7t268' with Wikidata IDs [Q777403], and ISNI IDs [0000 0001 2355 7002]", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "62", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3255, "prefix": "civic.tid", "mirId": "MIR:00000955", "name": "CIViC Therapy", "pattern": "^[0-9]+$", "description": "Therapies (often drugs) in CIViC are associated with Predictive Evidence Types, which describe sensitivity, resistance or adverse response to therapies when a given variant is present. The Therapy field may also be used to describe more general treatment types and regimes, such as FOLFOX or Radiation, as long as the literature derived Evidence Item makes a scientific association between the Therapy (treatment type) and the presence of the variant.", "created": "2022-08-08T18:33:25.710+0000", "modified": "2022-08-08T18:33:25.710+0000", "resources": [{"id": 3256, "mirId": "MIR:00000954", "urlPattern": "https://civicdb.org/links/drugs/{$id}", "name": "Clinical Interpretation of Variants in Cancer (CIViC)", "description": "CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer.", "official": true, "providerCode": "civicdb", "sampleId": "14", "resourceHomeUrl": "https://civicdb.org/", "institution": {"id": 2750, "name": "Washington University in St. Louis", "homeUrl": "https://wustl.edu/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/01yc7t268' with Wikidata IDs [Q777403], and ISNI IDs [0000 0001 2355 7002]", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "14", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3258, "prefix": "civic.did", "mirId": "MIR:00000957", "name": "CIViC Disease", "pattern": "^[0-9]+$", "description": "Within the CIViC database, the disease should be the cancer or cancer subtype that is a result of the described variant. The disease selected should be as specific as possible should reflect the disease type used in the source that supports the evidence statement.", "created": "2022-08-08T18:34:15.882+0000", "modified": "2022-08-08T18:34:15.882+0000", "resources": [{"id": 3259, "mirId": "MIR:00000956", "urlPattern": "https://civicdb.org/links/diseases/{$id}", "name": "Clinical Interpretation of Variants in Cancer (CIViC)", "description": "CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer.https://civicdb.org/\n", "official": true, "providerCode": "civicdb", "sampleId": "46", "resourceHomeUrl": "https://civicdb.org/", "institution": {"id": 2750, "name": "Washington University in St. Louis", "homeUrl": "https://wustl.edu/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/01yc7t268' with Wikidata IDs [Q777403], and ISNI IDs [0000 0001 2355 7002]", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "46", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3263, "prefix": "metatlas", "mirId": "MIR:00000959", "name": "Metabolic Atlas", "pattern": "^MA[MR]\\d{5}[a-z]?$", "description": "Metabolic Atlas facilitates metabolic modelling by presenting open source genome-scale metabolic models for easy browsing and analysis.", "created": "2022-08-08T18:36:40.981+0000", "modified": "2022-08-08T18:36:40.981+0000", "resources": [{"id": 3264, "mirId": "MIR:00000958", "urlPattern": "https://metabolicatlas.org/identifier/MetabolicAtlas/{$id}", "name": "Metabolic Atlas", "description": "Metabolic Atlas is a web platform integrating open-source genome scale metabolic models (GEMs) for easy browsing and analysis. The goal is to collect curated GEMs, and to bring these models closer to FAIR principles. The website provides visualisations and comparisons of the GEMs, and links to resources, algorithms, other databases, and more general software applications.", "official": true, "providerCode": "metatlas", "sampleId": "MAR01234", "resourceHomeUrl": "https://metabolicatlas.org", "institution": {"id": 3262, "name": "National Bioinformatics Infrastructure Sweden", "homeUrl": "https://nbis.se", "description": "NBIS (National Bioinformatics Infrastructure Sweden) is a distributed national research infrastructure supported by the Swedish Research Council (Vetenskapsr\u00e5det), Science for Life Laboratory, all major Swedish universities and the Knut and Alice Wallenberg Foundation, providing state-of-the-art bioinformatics to the Swedish life science researchers community. NBIS is also the Swedish contact point to the European infrastructure for biological information ELIXIR.\n\nPresent NBIS staff has expertise in protein bioinformatics, mass spectrometry (MS), next generation sequencing (NGS), large-scale data handling and integration, metagenomics, systems biology, biostatistics and RNAseq.\n\nNBIS is predominantly offering bioinformatics support in various projects, depending on the user needs. In the projects, the NBIS persons are working close to the research group, and they spend part of their time to teach the users in order to propagate the bioinformatics knowledge. Furthermore, NBIS provides infrastructure and tools for bioinformatics analyses in order to facilitate these analyses for the users.\n\nNBIS forms the bioinformatics platform at the Science for Life Laboratory.", "rorId": null, "location": {"countryCode": "SE", "countryName": "Sweden"}}, "location": {"countryCode": "SE", "countryName": "Sweden"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MAR01234", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 2168, "prefix": "dandi", "mirId": "MIR:00000786", "name": "DANDI: Distributed Archives for Neurophysiology Data Integration", "pattern": "^\\d{6}(\\/\\d+\\.\\d+\\.\\d+)?$", "description": "DANDI works with BICCN and other BRAIN Initiative awardees to curate data using community data standards such as NWB and BIDS, and to make data and software for cellular neurophysiology FAIR (Findable, Accessible, Interoperable, and Reusable).\nDANDI references electrical and optical cellular neurophysiology recordings and associated MRI and/or optical imaging data.\nThese 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.", "created": "2020-03-24T05:11:19.658+0000", "modified": "2021-10-18T12:32:14.264+0000", "resources": [{"id": 2169, "mirId": "MIR:00000750", "urlPattern": "https://dandiarchive.org/dandiset/{$id}", "name": "DANDI: Distributed Archives for Neurophysiology Data Integration", "description": "DANDI is a Web platform for scientists to share, collaborate, and process data from cellular neurophysiology experiments. DANDI works with BICCN and other BRAIN Initiative awardees to curate data using community data standards such as NWB and BIDS, and to make data and software for cellular neurophysiology FAIR (Findable, Accessible, Interoperable, and Reusable). DANDI will store electrical and optical cellular neurophysiology recordings and associated MRI and/or optical imaging data. 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/{$id}", "name": "University of New Mexico", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fs6jp91' with Wikidata IDs [Q1190812], and ISNI IDs [0000 0001 2188 8502]", "official": true, "providerCode": "drugcentral", "sampleId": "257", "resourceHomeUrl": "http://www.unm.edu/", "institution": {"id": 3297, "name": "University of New Mexico", "homeUrl": "http://www.unm.edu/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fs6jp91' with Wikidata IDs [Q1190812], and ISNI IDs [0000 0001 2188 8502]", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "257", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3307, "prefix": "skm", "mirId": "MIR:00000968", "name": "Stress Knowledge Map", "pattern": "^rx[0-9]{5}$", "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={$id}&return_field=summary", "name": "National Institute of Biology", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/03s5t0r17' with no Wikidata information, and ISNI IDs [0000 0004 0637 0790]", "official": true, "providerCode": "skm", "sampleId": "rx00408", "resourceHomeUrl": "http://www.nib.si/eng/", "institution": {"id": 3306, "name": "National Institute of Biology", "homeUrl": "http://www.nib.si/eng/", "description": "With about 190 employees, National Institute of Biology (NIB) is one of the independent Public Research Institution for Life Sciences in Slovenia. The Institute was established by the Government of the Republic of Slovenia in 1960. 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Where the identified component is a protein, DNA, or transcribed RNA, it is associated with protein sequences in the PANTHER protein family trees through manual curation.", "created": "2019-06-11T14:17:16.858+0000", "modified": "2023-01-04T16:32:41.267+0000", "resources": [{"id": 1218, "mirId": "MIR:00100545", "urlPattern": "http://www.pantherdb.org/pathway/pathCatDetail.do?clsAccession={$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. 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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": "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. 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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]+)?$", "description": "Hierarchical orthologous groups predicted by OMA (Orthologous MAtrix) database. 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This collection refers to growth stage ontology information in Gramene.", "created": "2019-06-11T14:17:36.384+0000", "modified": "2023-01-10T16:08:16.467+0000", "resources": [{"id": 1438, "mirId": "MIR:00100649", "urlPattern": "http://www.gramene.org/db/ontology/search?id=GRO:{$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}$", "description": "The Arabidopsis Information Resource (TAIR) maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana. 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This collection references genome map information.", "created": "2019-06-11T14:17:15.634+0000", "modified": "2019-06-11T14:17:15.634+0000", "resources": [{"id": 1204, "mirId": "MIR:00100539", "urlPattern": "http://bacmap.wishartlab.com/maps/{$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. AFNS offers undergraduate Bachelor of Science degrees in Agriculture, Animal Health, Agricultural/Food Business Science and Nutrition & Food Science each with a variety of majors. AFNS students can also pursue a course-based or thesis-based Master of Agriculture, Master of Science or a PhD.", "rorId": null, "location": {"countryCode": "CA", "countryName": "Canada"}}, "location": {"countryCode": "CA", "countryName": "Canada"}, "deprecated": false, "deprecationDate": null}], "sampleId": "AP011135", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1205, "prefix": "bgee.family", "mirId": "MIR:00000417", "name": "Bgee family", "pattern": "^(ENSFM|ENSGTV:)\\d+$", "description": "Bgee is a database of gene expression patterns within particular anatomical structures within a species, and between different animal species. This collection refers to expression across species.", "created": "2019-06-11T14:17:15.821+0000", "modified": "2019-06-11T14:17:15.821+0000", "resources": [{"id": 1207, "mirId": "MIR:00100540", "urlPattern": "http://bgee.unil.ch/bgee/bgee?page=gene_family&action=family_details&gene_family_id={$id}", "name": "Bgee at Lausanne", "description": "Bgee at Lausanne", "official": false, "providerCode": "sib", "sampleId": "ENSFM00500000270089", "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": "ENSFM00500000270089", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1208, "prefix": "bgee.gene", "mirId": "MIR:00000418", "name": "Bgee gene", "pattern": "^[A-Za-z]+\\d+$", "description": "Bgee is a database to retrieve and compare gene expression patterns in multiple species, produced from multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data). This collection references genes in Bgee.", "created": "2019-06-11T14:17:16.067+0000", "modified": "2019-06-11T14:17:16.067+0000", "resources": [{"id": 1210, "mirId": "MIR:00100541", "urlPattern": "https://bgee.org/?page=gene&gene_id={$id}", "name": "Bgee gene", "description": "Bgee gene", "official": false, "providerCode": "sib", "sampleId": "FBgn0000015", "resourceHomeUrl": "https://bgee.org/", "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": "FBgn0000015", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1211, "prefix": "bgee.stage", "mirId": "MIR:00000419", "name": "Bgee stage", "pattern": "^(FBvd|XtroDO|HsapDO|MmusDO)\\:\\d+$", "description": "Bgee is a database of gene expression patterns within particular anatomical structures within a species, and between different animal species. This collection refers to developmental stages.", "created": "2019-06-11T14:17:16.333+0000", "modified": "2019-06-11T14:17:16.333+0000", "resources": [{"id": 1212, "mirId": "MIR:00100542", "urlPattern": "http://bgee.unil.ch/bgee/bgee?page=anatomy&action=organs&stage_id={$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+$", "description": "Bgee is a database of gene expression patterns within particular anatomical structures within a species, and between different animal species. This collection refers to anatomical structures.", "created": "2019-06-11T14:17:16.514+0000", "modified": "2019-06-11T14:17:16.514+0000", "resources": [{"id": 1214, "mirId": "MIR:00100543", "urlPattern": "http://bgee.unil.ch/bgee/bgee?page=anatomy&action=organ_details&organ_id={$id}&organ_children=on", "name": "Bgee at Lausanne", "description": "Bgee at Lausanne", "official": false, "providerCode": "sib", "sampleId": "EHDAA:2185", "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": "EHDAA:2185", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1215, "prefix": "biocarta.pathway", "mirId": "MIR:00000421", "name": "BioCarta Pathway", "pattern": "^([hm]\\_)?\\w+Pathway$", "description": "BioCarta is a supplier and distributor of characterized reagents and assays for biopharmaceutical and academic research. It catalogs community produced online maps depicting molecular relationships from areas of active research, generating classical pathways as well as suggestions for new pathways. This collections references pathway maps.", "created": "2019-06-11T14:17:16.688+0000", "modified": "2019-06-11T14:17:16.688+0000", "resources": [{"id": 1216, "mirId": "MIR:00100544", "urlPattern": "https://cgap.nci.nih.gov/Pathways/BioCarta/{$id}", "name": "BioCarta Pathway at NCI", "description": "BioCarta Pathway at NCI", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "h_aktPathway", "resourceHomeUrl": "https://www.biocarta.com/", "institution": {"id": 442, "name": "National Cancer Institute, Center for Bioinformatics, 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": "h_aktPathway", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1219, "prefix": "gmd.profile", "mirId": "MIR:00000423", "name": "Golm Metabolome Database Profile", "pattern": "^([0-9a-fA-F]){8}(-([0-9a-fA-F]){4}){3}-([0-9a-fA-F]){12}$", "description": "Golm Metabolome Database (GMD) provides public access to custom mass spectral libraries, metabolite profiling experiments as well as additional information and tools. GMD's metabolite profiles provide relative metabolite concentrations normalised according to fresh weight (or comparable quantitative data, such as volume, cell count, etc.) and internal standards (e.g. ribotol) of biological reference conditions and tissues.", "created": "2019-06-11T14:17:17.038+0000", "modified": "2019-06-11T14:17:17.038+0000", "resources": [{"id": 1220, "mirId": "MIR:00100546", "urlPattern": "http://gmd.mpimp-golm.mpg.de/profile/default.aspx?XemlId={$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. 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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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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={$id}", "name": "ICEberg element at Shanghai Jiaotong University", "description": "ICEberg element at Shanghai Jiaotong University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "100", "resourceHomeUrl": "http://db-mml.sjtu.edu.cn/ICEberg/", "institution": {"id": 1339, "name": "State Key Laboratory of Microbial Metabolism and School of Life Sciences &amp;amp;amp;amp; Biotechnology, Shanghai Jiaotong University, Shanghai", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "100", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1341, "prefix": "iceberg.family", "mirId": "MIR:00000470", "name": "ICEberg family", "pattern": "^\\d+$", "description": "ICEberg (Integrative and conjugative elements) is a database of integrative and conjugative elements (ICEs) found in bacteria. 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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={$id}", "name": "ICEberg family at Shanghai Jiaotong University", "description": "ICEberg family at Shanghai Jiaotong University", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "1", "resourceHomeUrl": "http://db-mml.sjtu.edu.cn/ICEberg/", "institution": {"id": 1342, "name": "State Key Laboratory of Microbial Metabolism and School of Life Sciences &amp;amp; Biotechnology, Shanghai Jiaotong University, Shanghai", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "CN", "countryName": "China"}}, "location": {"countryCode": "CN", "countryName": "China"}, "deprecated": false, "deprecationDate": null}], "sampleId": "1", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1344, "prefix": "vfdb.genus", "mirId": "MIR:00000471", "name": "VFDB Genus", "pattern": "^\\w+$", "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+$", "description": "The KEGG DISEASE database is a collection of disease entries capturing knowledge on genetic and environmental perturbations. Each disease entry contains a list of known genetic factors (disease genes), environmental factors, diagnostic markers, and therapeutic drugs. 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Ritsumeikan, as an institute of education and research, pledges to promote peace, democracy and sustainable development in Japan and throughout the world, in keeping with the spirit of this Charter. ", "rorId": null, "location": {"countryCode": "JP", "countryName": "Japan"}}, "location": {"countryCode": "JP", "countryName": "Japan"}, "deprecated": false, "deprecationDate": null}], "sampleId": "EP0311", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1363, "prefix": "jcggdb", "mirId": "MIR:00000479", "name": "JCGGDB", "pattern": "^JCGG-STR\\d{6}$", "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 '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]+$", "description": "The YEast Intron Database (version 4.3) contains information on the spliceosomal introns of the yeast Saccharomyces cerevisiae. It includes expression data that relates to the efficiency of splicing relative to other processes in strains of yeast lacking nonessential splicing factors. The data are displayed on each intron page. This is an updated version of the previous dataset, which can be accessed through [MIR:00000460].", "created": "2019-06-11T14:17:39.906+0000", "modified": "2019-06-11T14:17:39.906+0000", "resources": [{"id": 1471, "mirId": "MIR:00100673", "urlPattern": "http://intron.ucsc.edu/cgi-bin/yeast4.3/intronreports.pl?outputformat=full&amp;orfName={$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,}$", "description": "The Antibiotic Resistance Genes Database (ARDB) is a manually curated database which characterises genes involved in antibiotic resistance. Each gene and resistance type is annotated with information, including resistance profile, mechanism of action, ontology, COG and CDD annotations, as well as external links to sequence and protein databases. This collection references resistance genes.", "created": "2019-06-11T14:17:40.104+0000", "modified": "2019-06-11T14:17:40.104+0000", "resources": [{"id": 1474, "mirId": "MIR:00100678", "urlPattern": "http://ardb.cbcb.umd.edu/cgi/search.cgi?db=L&amp;field=ni&amp;term={$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}$", "description": "The DrugBank database is a bioinformatics and chemoinformatics resource that combines detailed drug (i.e. chemical, pharmacological and pharmaceutical) data with comprehensive drug target (i.e. sequence, structure, and pathway) information. 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The Web site enables searches by structure, biological activity, physical property, vendor, catalog number, name, and CAS number.", "created": "2019-06-11T14:17:41.559+0000", "modified": "2019-06-11T14:17:41.559+0000", "resources": [{"id": 1490, "mirId": "MIR:00100688", "urlPattern": "http://zinc15.docking.org/substances/{$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/{$id}", "name": "United States Food and Drug Administration", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/034xvzb47' with Wikidata IDs [Q204711], and ISNI IDs [0000 0001 2243 3366]", "official": true, "providerCode": "fda", "sampleId": "3G6A5W338E", "resourceHomeUrl": "https://precision.fda.gov/uniisearch", "institution": {"id": 3440, "name": "United States Food and Drug Administration", "homeUrl": "https://www.fda.gov/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/034xvzb47' with Wikidata IDs [Q204711], and ISNI IDs [0000 0001 2243 3366]", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "3G6A5W338E", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1495, "prefix": "orphanet.ordo", "mirId": "MIR:00000532", "name": "Orphanet Rare Disease Ontology", "pattern": "^Orphanet(_|:)C?\\d+$", "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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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/{$id}", "name": "USPTO patents at USPTO", "description": "USPTO patents at USPTO", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "4145692", "resourceHomeUrl": "http://patft.uspto.gov/netahtml/PTO/index.html", "institution": {"id": 1511, "name": "United States Patent and Trademark Office", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "4145692", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1513, "prefix": "cpc", "mirId": "MIR:00000539", "name": "Cooperative Patent Classification", "pattern": "^([A-H,Y]|[A-H, Y]\\d{2}|[A-H, Y]\\d{2}[A-Z]|[A-H, Y]\\d{2}[A-Z]\\d{1,3}|[A-H, Y]\\d{2}[A-Z]\\d{1,3}(\\/)?\\d{2,})$", "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/{$id}", "name": "GWAS Central Study at University of Leicester", "description": "GWAS Central Study at University of Leicester", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "HGVST1828", "resourceHomeUrl": "https://www.gwascentral.org/studies", "institution": {"id": 1079, "name": "Department of Genetics, University of Leicester, Leicester", "homeUrl": "https://le.ac.uk/ggb", "description": "We are an internationally-recognised centre for pioneering research into genetics with specific expertise in patterns of human inheritance, identification of genetic determinants of human diseases, cancer genetics, circadian rhythms and microbial pathogenesis. Our renowned research includes the discovery by Professor Sir Alec Jeffreys of the technique of DNA fingerprinting and, more recently, for the identification of the bones of Richard III. We are proud of our cross-organism approach, which emphasises the fundamental importance of genetics as a common language for understanding the biology of organisms as diverse as bacteriophages, bacteria, yeast, fruit flies, insects, plants and humans.", "rorId": null, "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "HGVST1828", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1518, "prefix": "exac.variant", "mirId": "MIR:00000541", "name": "ExAC Variant", "pattern": "^\\d{1,2}\\-\\d+\\-[GATC]\\-[GATC]$", "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. The data pertains to unrelated individuals sequenced as part of various disease-specific and population genetic studies and serves as a reference set of allele frequencies for severe disease studies. This collection references variant information.", "created": "2019-06-11T14:17:44.275+0000", "modified": "2019-06-11T14:17:44.275+0000", "resources": [{"id": 1520, "mirId": "MIR:00100718", "urlPattern": "http://exac.broadinstitute.org/variant/{$id}", "name": "ExAC Variant at Exome Aggregation Consortium", "description": "ExAC Variant at Exome Aggregation Consortium", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "22-46615880-T-C", "resourceHomeUrl": "http://exac.broadinstitute.org/", "institution": {"id": 1519, "name": "Exome Aggregation Consortium (ExAC), Cambridge, Massachusetts", "homeUrl": "https://exac.broadinstitute.org/", "description": "The Exome Aggregation Consortium (ExAC) was a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "22-46615880-T-C", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1521, "prefix": "gwascentral.marker", "mirId": "MIR:00000542", "name": "GWAS Central Marker", "pattern": "^HGVM\\d+$", "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 Marker.", "created": "2019-06-11T14:17:44.511+0000", "modified": "2019-06-11T14:17:44.511+0000", "resources": [{"id": 1522, "mirId": "MIR:00100719", "urlPattern": "https://www.gwascentral.org/marker/{$id}", "name": "GWAS Central Marker at University of Leicester", "description": "GWAS Central Marker at University of Leicester", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "HGVM15354", "resourceHomeUrl": "https://www.gwascentral.org/markers/", "institution": {"id": 1079, "name": "Department of Genetics, University of Leicester, Leicester", "homeUrl": "https://le.ac.uk/ggb", "description": "We are an internationally-recognised centre for pioneering research into genetics with specific expertise in patterns of human inheritance, identification of genetic determinants of human diseases, cancer genetics, circadian rhythms and microbial pathogenesis. Our renowned research includes the discovery by Professor Sir Alec Jeffreys of the technique of DNA fingerprinting and, more recently, for the identification of the bones of Richard III. We are proud of our cross-organism approach, which emphasises the fundamental importance of genetics as a common language for understanding the biology of organisms as diverse as bacteriophages, bacteria, yeast, fruit flies, insects, plants and humans.", "rorId": null, "location": {"countryCode": "GB", "countryName": "United Kingdom"}}, "location": {"countryCode": "GB", "countryName": "United Kingdom"}, "deprecated": false, "deprecationDate": null}], "sampleId": "HGVM15354", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1555, "prefix": "bigg.metabolite", "mirId": "MIR:00000556", "name": "BiGG Metabolite", "pattern": "^[a-z_A-Z0-9]+$", "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. 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 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). It aims to collect and disseminate information relating to the fundamental principles of cellular response in humans to perturbation. This collection references proteins.", "created": "2019-06-11T14:17:45.145+0000", "modified": "2019-06-11T14:17:45.145+0000", "resources": [{"id": 1529, "mirId": "MIR:00100722", "urlPattern": "http://lincs.hms.harvard.edu/db/proteins/{$id}/", "name": "LINCS Protein at Harvard Medical School", "description": "LINCS Protein at Harvard Medical School", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "200282", "resourceHomeUrl": "http://lincs.hms.harvard.edu/db/proteins/", "institution": {"id": 1322, "name": "Harvard Medical School, Boston, Massachusetts", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "200282", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1530, "prefix": "lincs.smallmolecule", "mirId": "MIR:00000546", "name": "LINCS Small Molecule", "pattern": "^LSM-\\d+$", "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 small molecule collection is used as perturbagens in LINCS experiments. 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. The data pertains to unrelated individuals sequenced as part of various disease-specific and population genetic studies and serves as a reference set of allele frequencies for severe disease studies. This collection references transcript information.", "created": "2019-06-11T14:17:45.691+0000", "modified": "2019-06-11T14:17:45.691+0000", "resources": [{"id": 1534, "mirId": "MIR:00100724", "urlPattern": "http://exac.broadinstitute.org/transcript/{$id}", "name": "ExAC Transcript at Exome Aggregation Consortium", "description": "ExAC Transcript at Exome Aggregation Consortium", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ENST00000407236", "resourceHomeUrl": "http://exac.broadinstitute.org/", "institution": {"id": 1519, "name": "Exome Aggregation Consortium (ExAC), Cambridge, Massachusetts", "homeUrl": "https://exac.broadinstitute.org/", "description": "The Exome Aggregation Consortium (ExAC) was a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ENST00000407236", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1535, "prefix": "exac.gene", "mirId": "MIR:00000548", "name": "ExAC Gene", "pattern": "^ENSG\\d{11}$", "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. The data pertains to unrelated individuals sequenced as part of various disease-specific and population genetic studies and serves as a reference set of allele frequencies for severe disease studies. 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/{$id}", "name": "ExAC Gene at Exome Aggregation Consortium", "description": "ExAC Gene at Exome Aggregation Consortium", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "ENSG00000169174", "resourceHomeUrl": "http://exac.broadinstitute.org/", "institution": {"id": 1519, "name": "Exome Aggregation Consortium (ExAC), Cambridge, Massachusetts", "homeUrl": "https://exac.broadinstitute.org/", "description": "The Exome Aggregation Consortium (ExAC) was a coalition of investigators seeking to aggregate and harmonize exome sequencing data from a variety of large-scale sequencing projects, and to make summary data available for the wider scientific community. ", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "ENSG00000169174", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1542, "prefix": "unipathway.compound", "mirId": "MIR:00000551", "name": "UniPathway Compound", "pattern": "^UPC\\d{5}$", "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 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. It is a framework to support comparative analysis and annotation of genomes, and the development of curated genomic data (annotation). Curation is performed at the level of subsystems by an expert annotator, across many genomes, and not on a gene by gene basis. 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. It is a framework to support comparative analysis and annotation of genomes, and the development of curated genomic data (annotation). Curation is performed at the level of subsystems by an expert annotator, across many genomes, and not on a gene by gene basis. 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. 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 individual models.", "created": "2019-06-11T14:17:47.362+0000", "modified": "2019-06-11T14:17:47.362+0000", "resources": [{"id": 1552, "mirId": "MIR:00100731", "urlPattern": "http://bigg.ucsd.edu/models/{$id}", "name": "BiGG Model at University of California", "description": "BiGG Model at University of California", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "iECABU_c1320", "resourceHomeUrl": "http://bigg.ucsd.edu/models", "institution": {"id": 190, "name": "University of California, San Diego", "homeUrl": "https://ucsd.edu/", "description": "is a public research university in San Diego, California.\nEstablished in 1960 near the pre-existing Scripps Institution of Oceanography, UC San Diego is the seventh-oldest of the 10 University of California campuses and offers over 200 undergraduate and graduate degree programs, enrolling approximately 30,000 undergraduate and 8,500 graduate students.", "rorId": "https://ror.org/0168r3w48", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "iECABU_c1320", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1553, "prefix": "bigg.compartment", "mirId": "MIR:00000555", "name": "BiGG Compartment", "pattern": "^[a-z_A-Z]+$", "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 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/{$id}", "name": "Wikidata at Wikimedia Foundation", "description": "Wikidata at Wikimedia Foundation", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "Q2207226", "resourceHomeUrl": "https://www.wikidata.org/", "institution": {"id": 1111, "name": "Wikimedia Foundation, San Francisco, California", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "Q2207226", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1557, "prefix": "bigg.reaction", "mirId": "MIR:00000557", "name": "BiGG Reaction", "pattern": "^[a-z_A-Z0-9]+$", "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. 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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]+$", "description": "The spectra hash code (SPLASH) is a unique and non-proprietary identifier for spectra, and is independent of how the spectra were acquired or processed. 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This information undergoes a reconciliation process to minimise for discrepancies between different data sources, and makes the data accessible under a common namespace. 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It provides a hierarchical representation of metabolic pathways and a controlled vocabulary for pathway annotation in UniProtKB. UniPathway data are cross-linked to existing metabolic resources such as ChEBI/Rhea, KEGG and MetaCyc. 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Each term in the HPO describes a phenotypic abnormality, such as atrial septal defect. 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Medical genetics connects basic research with clinical medicine and thereby allows for the application of findings when making predictive and preventive assessments. In addition to the standard methods used for diagnostics, medical genetics makes use of an increasing number of molecular genetic methods. The use of these methods enables us to identify an ever increasing number of genetic diseases. Molecular genetics exhibits an exceptional potential to assist us in the comprehension of the etiology and pathogenesis of diseases and will contribute to the development of novel therapeutic concepts.", "rorId": null, "location": {"countryCode": "DE", "countryName": "Germany"}}, "location": {"countryCode": "DE", "countryName": "Germany"}, "deprecated": false, "deprecationDate": null}], "sampleId": "0000118", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1593, "prefix": "sasbdb", "mirId": "MIR:00000572", "name": "SASBDB", "pattern": "^[Ss][Aa][Ss][A-Za-z0-9]{3}[0-9]$", "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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The dataset group comprises datasets for the same experiment but with different data level results (data processed to a different level).", "created": "2019-06-11T14:17:56.343+0000", "modified": "2019-06-11T14:17:56.343+0000", "resources": [{"id": 1636, "mirId": "MIR:00100785", "urlPattern": "http://lincsportal.ccs.miami.edu/datasets/#/view/{$id}", "name": "LINCS Data at University of Miami", "description": "LINCS Data at University of Miami", "official": true, "providerCode": "CURATOR_REVIEW", "sampleId": "LDS-1110", "resourceHomeUrl": "http://lincsportal.ccs.miami.edu/datasets/", "institution": {"id": 1526, "name": "University of Miami, BD2K-LINCS DCIC", "homeUrl": "CURATOR_REVIEW", "description": "CURATOR_REVIEW", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}, {"id": 1637, "mirId": "MIR:00100856", "urlPattern": "https://www.omicsdi.org/dataset/lincs/{$id}", "name": "Lincs through OmicsDI", "description": "Lincs through OmicsDI", "official": false, "providerCode": "omicsdi", "sampleId": "LDS-1110", "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": "LDS-1110", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1638, "prefix": "agricola", "mirId": "MIR:00000589", "name": "AGRICOLA", "pattern": "^\\d+$", "description": "AGRICOLA (AGRICultural OnLine Access) serves as the catalog and index to the collections of the National Agricultural Library, as well as a primary public source for world-wide access to agricultural information. 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It houses one of the world's largest collections devoted to agriculture and its related sciences.", "rorId": "https://ror.org/00z6b1508", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "50018", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1641, "prefix": "ms", "mirId": "MIR:00000590", "name": "Mass Spectrometry Controlled Vocabulary", "pattern": "^MS:\\d{7}$", "description": "The PSI-Mass Spectrometry (MS) CV contains all the terms used in the PSI MS-related data standards. The CV contains a logical hierarchical structure to ensure ease of maintenance and the development of software that makes use of complex semantics. 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The core content of the record may include names, identifiers used by other databases, mode of inheritance, clinical features, and map location of the loci affecting the disorder.", "created": "2019-06-11T14:17:58.068+0000", "modified": "2019-06-11T14:17:58.068+0000", "resources": [{"id": 1654, "mirId": "MIR:00100794", "urlPattern": "https://www.ncbi.nlm.nih.gov/medgen/{$id}", "name": "MedGen at NCBI", "description": "MedGen at NCBI", "official": false, "providerCode": "ncbi", "sampleId": "760050", "resourceHomeUrl": "https://www.ncbi.nlm.nih.gov/medgen/", "institution": {"id": 26, "name": "National Center for Biotechnology Information", "homeUrl": "https://www.ncbi.nlm.nih.gov/", "description": "The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.", "rorId": "https://ror.org/02meqm098", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "760050", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 1655, "prefix": "clinvar.submission", "mirId": "MIR:00000595", "name": "ClinVar Submission", "pattern": "^SCV\\d+(\\.\\d+)?$", "description": "ClinVar archives reports of relationships among medically important variants and phenotypes. 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\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": "00100037", "namespaceEmbeddedInLui": true, "deprecated": false, "deprecationDate": null}, {"id": 1669, "prefix": "cosmic", "mirId": "MIR:00000601", "name": "COSMIC Gene", "pattern": "^[A-Z0-9]+$", "description": "COSMIC is a comprehensive global resource for information on somatic mutations in human cancer, combining curation of the scientific literature with tumor resequencing data from the Cancer Genome Project at the Sanger Institute, U.K. This collection references genes.", "created": "2019-06-11T14:17:59.699+0000", "modified": 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The ICDC was established to further research on human cancers by enabling comparative analysis with canine cancer.", "created": "2021-05-10T19:40:34.200+0000", "modified": "2022-03-31T16:55:06.915+0000", "resources": [{"id": 2639, "mirId": "MIR:00000811", "urlPattern": "https://caninecommons.cancer.gov/#/study/{$id}", "name": "Integrated Canine Data Commons", "description": "Integrated Canine Data Commons at National Cancer Institute (USA)", "official": true, "providerCode": "icdc", "sampleId": "000009", "resourceHomeUrl": "https://caninecommons.cancer.gov/#/", "institution": {"id": 2637, "name": "National Cancer Institute", "homeUrl": "https://www.cancer.gov/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/040gcmg81' with Wikidata IDs [Q664846], and ISNI IDs [0000 0004 1936 8075]", "rorId": "https://ror.org/040gcmg81", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "000009", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 361, "prefix": "pdb-ccd", "mirId": "MIR:00000113", "name": "Chemical Component Dictionary", "pattern": "^\\w{1,3}$", "description": "The Chemical Component Dictionary is as an external reference file describing all residue and small molecule components found in Protein Data Bank entries. It contains detailed chemical descriptions for standard and modified amino acids/nucleotides, small molecule ligands, and solvent molecules. Each chemical definition includes descriptions of chemical properties such as stereochemical assignments, aromatic bond assignments, idealized coordinates, chemical descriptors (SMILES & InChI), and systematic chemical names.", "created": "2019-06-11T14:16:03.054+0000", "modified": "2022-05-18T15:48:21.884+0000", "resources": [{"id": 362, "mirId": "MIR:00100146", "urlPattern": "https://www.ebi.ac.uk/pdbe-srv/pdbechem/chemicalCompound/show/{$id}", "name": "Protein Data Bank Chemical Component Dictionary at EBI", "description": "Protein Data Bank Chemical Component Dictionary at EBI", "official": false, "providerCode": "ebi", "sampleId": "AB0", "resourceHomeUrl": "https://www.ebi.ac.uk/pdbe-srv/pdbechem/", "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": "AB0", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3252, "prefix": "civic.sid", "mirId": "MIR:00000953", "name": "CIViC Source", "pattern": "^[0-9]+$", "description": "In CIViC, each Evidence Item must be associated with a Source Type and Source ID, which link the Evidence Item to the original source of information supporting clinical claims. Currently, CIViC accepts publications indexed on PubMed OR abstracts published through the American Society of Clinical Oncology (ASCO). Each such source entered into CIViC is assigned a unique identifier and expert curators can curate guidance that assists future curators in the interpretation of information from this source.", "created": "2022-08-08T18:32:17.171+0000", "modified": "2022-08-08T18:32:17.171+0000", "resources": [{"id": 3253, "mirId": "MIR:00000952", "urlPattern": "https://civicdb.org/links/sources/{$id}", "name": "Clinical Interpretation of Variants in Cancer (CIViC)", "description": "CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer.", "official": true, "providerCode": "civicdb", "sampleId": "62", "resourceHomeUrl": "https://civicdb.org/", "institution": {"id": 2750, "name": "Washington University in St. Louis", "homeUrl": "https://wustl.edu/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/01yc7t268' with Wikidata IDs [Q777403], and ISNI IDs [0000 0001 2355 7002]", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "62", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3255, "prefix": "civic.tid", "mirId": "MIR:00000955", "name": "CIViC Therapy", "pattern": "^[0-9]+$", "description": "Therapies (often drugs) in CIViC are associated with Predictive Evidence Types, which describe sensitivity, resistance or adverse response to therapies when a given variant is present. The Therapy field may also be used to describe more general treatment types and regimes, such as FOLFOX or Radiation, as long as the literature derived Evidence Item makes a scientific association between the Therapy (treatment type) and the presence of the variant.", "created": "2022-08-08T18:33:25.710+0000", "modified": "2022-08-08T18:33:25.710+0000", "resources": [{"id": 3256, "mirId": "MIR:00000954", "urlPattern": "https://civicdb.org/links/drugs/{$id}", "name": "Clinical Interpretation of Variants in Cancer (CIViC)", "description": "CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer.", "official": true, "providerCode": "civicdb", "sampleId": "14", "resourceHomeUrl": "https://civicdb.org/", "institution": {"id": 2750, "name": "Washington University in St. Louis", "homeUrl": "https://wustl.edu/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/01yc7t268' with Wikidata IDs [Q777403], and ISNI IDs [0000 0001 2355 7002]", "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": 3258, "prefix": "civic.did", "mirId": "MIR:00000957", "name": "CIViC Disease", "pattern": "^[0-9]+$", "description": "Within the CIViC database, the disease should be the cancer or cancer subtype that is a result of the described variant. The disease selected should be as specific as possible should reflect the disease type used in the source that supports the evidence statement.", "created": "2022-08-08T18:34:15.882+0000", "modified": "2022-08-08T18:34:15.882+0000", "resources": [{"id": 3259, "mirId": "MIR:00000956", "urlPattern": "https://civicdb.org/links/diseases/{$id}", "name": "Clinical Interpretation of Variants in Cancer (CIViC)", "description": "CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer.https://civicdb.org/\n", "official": true, "providerCode": "civicdb", "sampleId": "46", "resourceHomeUrl": "https://civicdb.org/", "institution": {"id": 2750, "name": "Washington University in St. Louis", "homeUrl": "https://wustl.edu/", "description": "Organization information obtained from ROR API using ROR ID 'https://ror.org/01yc7t268' with Wikidata IDs [Q777403], and ISNI IDs [0000 0001 2355 7002]", "rorId": null, "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "46", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 3263, "prefix": "metatlas", "mirId": "MIR:00000959", "name": "Metabolic Atlas", "pattern": "^MA[MR]\\d{5}[a-z]?$", "description": "Metabolic Atlas facilitates metabolic modelling by presenting open source genome-scale metabolic models for easy browsing and analysis.", "created": "2022-08-08T18:36:40.981+0000", "modified": "2022-08-08T18:36:40.981+0000", "resources": [{"id": 3264, "mirId": "MIR:00000958", "urlPattern": "https://metabolicatlas.org/identifier/MetabolicAtlas/{$id}", "name": "Metabolic Atlas", "description": "Metabolic Atlas is a web platform integrating open-source genome scale metabolic models (GEMs) for easy browsing and analysis. The goal is to collect curated GEMs, and to bring these models closer to FAIR principles. The website provides visualisations and comparisons of the GEMs, and links to resources, algorithms, other databases, and more general software applications.", "official": true, "providerCode": "metatlas", "sampleId": "MAR01234", "resourceHomeUrl": "https://metabolicatlas.org", "institution": {"id": 3262, "name": "National Bioinformatics Infrastructure Sweden", "homeUrl": "https://nbis.se", "description": "NBIS (National Bioinformatics Infrastructure Sweden) is a distributed national research infrastructure supported by the Swedish Research Council (Vetenskapsr\u00e5det), Science for Life Laboratory, all major Swedish universities and the Knut and Alice Wallenberg Foundation, providing state-of-the-art bioinformatics to the Swedish life science researchers community. NBIS is also the Swedish contact point to the European infrastructure for biological information ELIXIR.\n\nPresent NBIS staff has expertise in protein bioinformatics, mass spectrometry (MS), next generation sequencing (NGS), large-scale data handling and integration, metagenomics, systems biology, biostatistics and RNAseq.\n\nNBIS is predominantly offering bioinformatics support in various projects, depending on the user needs. In the projects, the NBIS persons are working close to the research group, and they spend part of their time to teach the users in order to propagate the bioinformatics knowledge. Furthermore, NBIS provides infrastructure and tools for bioinformatics analyses in order to facilitate these analyses for the users.\n\nNBIS forms the bioinformatics platform at the Science for Life Laboratory.", "rorId": null, "location": {"countryCode": "SE", "countryName": "Sweden"}}, "location": {"countryCode": "SE", "countryName": "Sweden"}, "deprecated": false, "deprecationDate": null}], "sampleId": "MAR01234", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 2168, "prefix": "dandi", "mirId": "MIR:00000786", "name": "DANDI: Distributed Archives for Neurophysiology Data Integration", "pattern": "^\\d{6}(\\/\\d+\\.\\d+\\.\\d+)?$", "description": "DANDI works with BICCN and other BRAIN Initiative awardees to curate data using community data standards such as NWB and BIDS, and to make data and software for cellular neurophysiology FAIR (Findable, Accessible, Interoperable, and Reusable).\nDANDI references electrical and optical cellular neurophysiology recordings and associated MRI and/or optical imaging data.\nThese data will help scientists uncover and understand cellular level mechanisms of brain function. Scientists will study the formation of neural networks, how cells and networks enable functions such as learning and memory, and how these functions are disrupted in neurological disorders.", "created": "2020-03-24T05:11:19.658+0000", "modified": "2021-10-18T12:32:14.264+0000", "resources": [{"id": 2169, "mirId": "MIR:00000750", "urlPattern": "https://dandiarchive.org/dandiset/{$id}", "name": "DANDI: Distributed Archives for Neurophysiology Data Integration", "description": "DANDI is a Web platform for scientists to share, collaborate, and process data from cellular neurophysiology experiments. DANDI works with BICCN and other BRAIN Initiative awardees to curate data using community data standards such as NWB and BIDS, and to make data and software for cellular neurophysiology FAIR (Findable, Accessible, Interoperable, and Reusable). DANDI will store electrical and optical cellular neurophysiology recordings and associated MRI and/or optical imaging data. 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": "Organization information obtained from ROR API using ROR ID 'https://ror.org/05fs6jp91' with Wikidata IDs [Q1190812], and ISNI IDs [0000 0001 2188 8502]", "rorId": null, "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. 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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={$id}", "name": "PANTHER Pathway Component at USC (Los Angeles)", "description": "PANTHER Pathway Component at USC (Los Angeles)", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "P00266", "resourceHomeUrl": "http://www.pantherdb.org/", "institution": {"id": 94, "name": "Keck School of Medicine, University of Southern California", "homeUrl": "https://www.keckmedicine.org/", "description": "Keck Medicine of USC is the University of Southern California\u2019s medical enterprise, one of only two university-based medical systems in the Los Angeles area. 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", "rorId": "https://ror.org/01rq8ck58", "location": {"countryCode": "US", "countryName": "United States"}}, "location": {"countryCode": "US", "countryName": "United States"}, "deprecated": false, "deprecationDate": null}], "sampleId": "P00266", "namespaceEmbeddedInLui": false, "deprecated": false, "deprecationDate": null}, {"id": 341, "prefix": "genedb", "mirId": "MIR:00000106", "name": "GeneDB", "pattern": "^[\\w\\d\\.-]*$", "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:{$id}", "name": "Aclame database of mobile genetic elements", "description": "Aclame database of mobile genetic elements", "official": false, "providerCode": "CURATOR_REVIEW", "sampleId": "2", "resourceHomeUrl": "http://aclame.ulb.ac.be/", "institution": {"id": 221, "name": "Service de Conformation de Macromol\u00e9cules Biologiques et de Bioinformatique, Universit\u00e9 Libre de Bruxelles", "homeUrl": "https://www.ulb.be/", "description": " Four scientific Nobel Prizes, one Fields Medal, three Wolf Prizes are further evidence of the University's longstanding tradition of excellence. 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Over the past few years, it has obtained 49 Grants (24 Starting, 12 Consolidator, 11 Advanced, 1 Synergy and 1 Proof of Concept Grants)  from the European Research Area (ERC) to finance research in Medicine, Mathematics, Political Science, Economics, Physics, etc. In addition, the University's Institute for European Studies is recognized as a \u201cJean Monnet European research centre\u201d for its work on European integration.", "rorId": null, "location": {"countryCode": "BE", "countryName": "Belgium"}}, "location": {"countryCode": "BE", "countryName": "Belgium"}, "deprecated": false, "deprecationDate": null}], "sampleId": "2", "namespaceEmbeddedInLui": true, "deprecated": true, "deprecationDate": "2023-01-10T13:18:19.506+0000"}, {"id": 2484, "prefix": "oma.hog", "mirId": "MIR:00000785", "name": "OMA HOGs", "pattern": "^HOG:[0-9]{7}(\\.[0-9a-z.]+)?(_[0-9]+)?$", "description": "Hierarchical orthologous groups predicted by OMA (Orthologous MAtrix) database. 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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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