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ontologies.jsonld
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{
"@context": "http://obofoundry.github.io/registry/context.jsonld",
"ontologies": [
{
"activity_status": "active",
"contact": {
"email": "alpha.tom.kodamullil@scai.fraunhofer.de",
"github": "akodamullil",
"label": "Alpha Tom Kodamullil",
"orcid": "0000-0001-9896-3531"
},
"dependencies": [
{
"id": "bfo"
}
],
"description": "Alzheimer's Disease Ontology is a knowledge-based ontology that encompasses varieties of concepts related to Alzheimer'S Disease, structured by upper level Basic Formal Ontology(BFO). This Ontology is enriched by the interrelated entities that demonstrate the network of the understanding on Alzheimer's disease and can be readily applied for text mining.",
"domain": "health",
"homepage": "https://github.com/Fraunhofer-SCAI-Applied-Semantics/ADO",
"id": "ado",
"layout": "ontology_detail",
"license": {
"label": "CC BY 4.0",
"logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png",
"url": "https://creativecommons.org/licenses/by/4.0/"
},
"ontology_purl": "http://purl.obolibrary.org/obo/ado.owl",
"preferredPrefix": "ADO",
"products": [
{
"id": "ado.owl",
"ontology_purl": "http://purl.obolibrary.org/obo/ado.owl"
}
],
"repository": "https://github.com/Fraunhofer-SCAI-Applied-Semantics/ADO",
"title": "Alzheimer's Disease Ontology",
"tracker": "https://github.com/Fraunhofer-SCAI-Applied-Semantics/ADO/issues"
},
{
"activity_status": "active",
"contact": {
"email": "mcmelek@msn.com",
"github": "Melek-C",
"label": "Melek Chaouch",
"orcid": "0000-0001-5868-4204"
},
"description": "AfPO is an ontology that can be used in the study of diverse populations across Africa. It brings together publicly available demographic, anthropological and genetic data relating to African people in a standardised and structured format. The AfPO can be employed to classify African study participants comprehensively in prospective research studies. It can also be used to classify past study participants by mapping them using a language or ethnicity identifier or synonyms.",
"domain": "organisms",
"homepage": "https://github.com/h3abionet/afpo",
"id": "afpo",
"layout": "ontology_detail",
"license": {
"label": "CC BY 4.0",
"logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png",
"url": "https://creativecommons.org/licenses/by/4.0/"
},
"ontology_purl": "http://purl.obolibrary.org/obo/afpo.owl",
"preferredPrefix": "AfPO",
"products": [
{
"description": "The main ontology in OWL. Contains all MP terms and links to other OBO ontologies",
"id": "afpo.owl",
"ontology_purl": "http://purl.obolibrary.org/obo/afpo.owl",
"title": "AfPO (OWL edition)"
},
{
"description": "A direct translation of the AfPO (OWL edition) into OBO format",
"id": "afpo.obo",
"ontology_purl": "http://purl.obolibrary.org/obo/afpo.obo",
"page": "https://github.com/h3abionet/afpo",
"title": "AfPO (OBO edition)"
},
{
"description": "A direct translation of the AfPO (OWL edition) into OBOGraph JSON format",
"id": "afpo.json",
"ontology_purl": "http://purl.obolibrary.org/obo/afpo.json",
"page": "https://github.com/h3abionet/afpo",
"title": "AfPO (obographs JSON edition)"
}
],
"repository": "https://github.com/h3abionet/afpo",
"tags": [
"ancestry"
],
"title": "African Population Ontology",
"tracker": "https://github.com/h3abionet/afpo/issues"
},
{
"activity_status": "active",
"contact": {
"email": "m.a.laporte@cgiar.org",
"github": "marieALaporte",
"label": "Marie-Angélique Laporte",
"orcid": "0000-0002-8461-9745"
},
"dependencies": [
{
"id": "bfo"
},
{
"id": "envo"
},
{
"id": "foodon"
},
{
"id": "go"
},
{
"id": "iao"
},
{
"id": "ncbitaxon"
},
{
"id": "obi"
},
{
"id": "pato"
},
{
"id": "peco"
},
{
"id": "po"
},
{
"id": "ro"
},
{
"id": "to"
},
{
"id": "uo"
},
{
"id": "xco"
}
],
"description": "Ontology of agronomic practices, agronomic techniques, and agronomic variables used in agronomic experiments",
"domain": "agriculture",
"homepage": "https://github.com/AgriculturalSemantics/agro",
"id": "agro",
"layout": "ontology_detail",
"license": {
"label": "CC BY 4.0",
"logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png",
"url": "https://creativecommons.org/licenses/by/4.0/"
},
"ontology_purl": "http://purl.obolibrary.org/obo/agro.owl",
"preferredPrefix": "AGRO",
"products": [
{
"description": "Contains all AgrO terms and links to other relevant ontologies.",
"id": "agro.owl",
"ontology_purl": "http://purl.obolibrary.org/obo/agro.owl",
"title": "AgrO"
}
],
"publications": [
{
"id": "http://ceur-ws.org/Vol-1747/IT205_ICBO2016.pdf",
"title": "Data-driven Agricultural Research for Development: A Need for Data Harmonization Via Semantics."
}
],
"repository": "https://github.com/AgriculturalSemantics/agro",
"tags": [
"agronomy"
],
"title": "Agronomy Ontology",
"tracker": "https://github.com/AgriculturalSemantics/agro/issues/",
"usages": [
{
"description": "AgroFIMS enables digital collection of agronomic data that is semantically described a priori with agronomic terms from AgrO.",
"user": "https://agrofims.org/about"
},
{
"description": "AgrO is being used by GARDIAN to facilitate data search within publications and datasets for use in quantitative analyses.",
"user": "https://gardian.bigdata.cgiar.org/"
}
]
},
{
"activity_status": "active",
"build": {
"checkout": "git clone https://github.com/insect-morphology/aism",
"path": ".",
"system": "git"
},
"contact": {
"email": "entiminae@gmail.com",
"github": "JCGiron",
"label": "Jennifer C. Girón",
"orcid": "0000-0002-0851-6883"
},
"dependencies": [
{
"id": "bfo"
},
{
"id": "bspo"
},
{
"id": "caro"
},
{
"id": "pato"
},
{
"id": "ro"
},
{
"id": "uberon"
}
],
"description": "The AISM contains terms used in insect biodiversity research for describing structures of the exoskeleton and the skeletomuscular system. It aims to serve as the basic backbone of generalized terms to be expanded with order-specific terminology.",
"domain": "anatomy and development",
"homepage": "https://github.com/insect-morphology/aism",
"id": "aism",
"layout": "ontology_detail",
"license": {
"label": "CC BY 4.0",
"logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png",
"url": "https://creativecommons.org/licenses/by/4.0/"
},
"ontology_purl": "http://purl.obolibrary.org/obo/aism.owl",
"preferredPrefix": "AISM",
"products": [
{
"id": "aism.owl",
"ontology_purl": "http://purl.obolibrary.org/obo/aism.owl"
},
{
"id": "aism.obo",
"ontology_purl": "http://purl.obolibrary.org/obo/aism.obo"
},
{
"id": "aism.json",
"ontology_purl": "http://purl.obolibrary.org/obo/aism.json"
}
],
"repository": "https://github.com/insect-morphology/aism",
"title": "Ontology for the Anatomy of the Insect SkeletoMuscular system (AISM)",
"tracker": "https://github.com/insect-morphology/aism/issues"
},
{
"activity_status": "active",
"build": {
"checkout": "git clone https://github.com/EBISPOT/amphx_ontology.git",
"path": ".",
"system": "git"
},
"contact": {
"email": "hescriva@obs-banyuls.fr",
"github": "hescriva",
"label": "Hector Escriva",
"orcid": "0000-0001-7577-5028"
},
"dependencies": [
{
"id": "uberon"
}
],
"description": "An ontology for the development and anatomy of Amphioxus (Branchiostoma lanceolatum).",
"domain": "anatomy and development",
"homepage": "https://github.com/EBISPOT/amphx_ontology",
"id": "amphx",
"layout": "ontology_detail",
"license": {
"label": "CC BY 3.0",
"logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png",
"url": "http://creativecommons.org/licenses/by/3.0/"
},
"ontology_purl": "http://purl.obolibrary.org/obo/amphx.owl",
"preferredPrefix": "AMPHX",
"products": [
{
"id": "amphx.owl",
"ontology_purl": "http://purl.obolibrary.org/obo/amphx.owl"
},
{
"id": "amphx.obo",
"ontology_purl": "http://purl.obolibrary.org/obo/amphx.obo"
}
],
"repository": "https://github.com/EBISPOT/amphx_ontology",
"title": "The Amphioxus Development and Anatomy Ontology",
"tracker": "https://github.com/EBISPOT/amphx_ontology/issues"
},
{
"activity_status": "active",
"build": {
"method": "obo2owl",
"source_url": "https://raw.githubusercontent.com/obophenotype/ascomycete-phenotype-ontology/master/apo.obo"
},
"contact": {
"email": "stacia@stanford.edu",
"github": "srengel",
"label": "Stacia R Engel",
"orcid": "0000-0001-5472-917X"
},
"description": "A structured controlled vocabulary for the phenotypes of Ascomycete fungi",
"domain": "phenotype",
"homepage": "http://www.yeastgenome.org/",
"id": "apo",
"layout": "ontology_detail",
"license": {
"label": "CC BY 4.0",
"logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png",
"url": "https://creativecommons.org/licenses/by/4.0/"
},
"ontology_purl": "http://purl.obolibrary.org/obo/apo.owl",
"preferredPrefix": "APO",
"products": [
{
"id": "apo.owl",
"ontology_purl": "http://purl.obolibrary.org/obo/apo.owl"
},
{
"id": "apo.obo",
"ontology_purl": "http://purl.obolibrary.org/obo/apo.obo"
}
],
"publications": [
{
"id": "https://www.ncbi.nlm.nih.gov/pubmed/20157474",
"title": "New mutant phenotype data curation system in the Saccharomyces Genome Database"
}
],
"repository": "https://github.com/obophenotype/ascomycete-phenotype-ontology",
"taxon": {
"id": "NCBITaxon:4890",
"label": "Ascomycota"
},
"title": "Ascomycete phenotype ontology",
"tracker": "https://github.com/obophenotype/ascomycete-phenotype-ontology/issues"
},
{
"activity_status": "active",
"contact": {
"email": "hoganwr@gmail.com",
"github": "hoganwr",
"label": "William Hogan",
"orcid": "0000-0002-9881-1017"
},
"description": "An OWL2 ontology of phenomena in infectious disease epidemiology and population biology for use in epidemic simulation.",
"domain": "health",
"homepage": "https://github.com/ApolloDev/apollo-sv",
"id": "apollo_sv",
"layout": "ontology_detail",
"license": {
"label": "CC BY 4.0",
"logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png",
"url": "https://creativecommons.org/licenses/by/4.0/"
},
"ontology_purl": "http://purl.obolibrary.org/obo/apollo_sv.owl",
"preferredPrefix": "APOLLO_SV",
"products": [
{
"id": "apollo_sv.owl",
"ontology_purl": "http://purl.obolibrary.org/obo/apollo_sv.owl"
}
],
"publications": [
{
"id": "https://doi.org/10.1186/s13326-016-0092-y",
"title": "The Apollo Structured Vocabulary: an OWL2 ontology of phenomena in infectious disease epidemiology and population biology for use in epidemic simulation"
}
],
"repository": "https://github.com/ApolloDev/apollo-sv",
"title": "Apollo Structured Vocabulary",
"tracker": "https://github.com/ApolloDev/apollo-sv/issues",
"usages": [
{
"description": "Apollo-SV terms are used in the new MIDAS portal (https://midasnetwork.us/catalog/) for making data discoverable.",
"examples": [
{
"description": "A 'hospital stay dataset' reference in the midasnetwork.us resource",
"url": "https://midasnetwork.us/ontology/class-oboapollo_sv_00000600.html"
}
],
"seeAlso": "https://midasnetwork.us/catalog/",
"type": "annotation",
"user": "https://midasnetwork.us/"
}
]
},
{
"activity_status": "active",
"contact": {
"email": "mcarthua@mcmaster.ca",
"github": "agmcarthur",
"label": "Andrew G. McArthur",
"orcid": "0000-0002-1142-3063"
},
"description": "Antibiotic resistance genes and mutations",
"domain": "microbiology",
"homepage": "https://github.com/arpcard/aro",
"id": "aro",
"layout": "ontology_detail",
"license": {
"label": "CC BY 4.0",
"logo": "http://mirrors.creativecommons.org/presskit/buttons/80x15/png/by.png",
"url": "https://creativecommons.org/licenses/by/4.0/"
},
"mailing_list": "https://mailman.mcmaster.ca/mailman/listinfo/card-l",
"ontology_purl": "http://purl.obolibrary.org/obo/aro.owl",
"preferredPrefix": "ARO",
"products": [
{
"id": "aro.owl",
"ontology_purl": "http://purl.obolibrary.org/obo/aro.owl"
}
],
"publications": [
{
"id": "https://www.ncbi.nlm.nih.gov/pubmed/31665441",
"title": "CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database."
}
],
"repository": "https://github.com/arpcard/aro",
"title": "Antibiotic Resistance Ontology",
"tracker": "https://github.com/arpcard/aro/issues"
},
{
"activity_status": "active",
"contact": {
"email": "rlwalls2008@gmail.com",
"github": "ramonawalls",
"label": "Ramona Walls",
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