{"id":81476,"name":"ENVO","description":"A community-driven ontology for the representation of environments.","url":"https://github.com/environmentontology/envo","last_synced_at":"2026-04-10T03:30:49.874Z","repository":{"id":40560539,"uuid":"33046928","full_name":"EnvironmentOntology/envo","owner":"EnvironmentOntology","description":"A community-driven ontology for the representation of environments","archived":false,"fork":false,"pushed_at":"2025-10-22T13:31:51.000Z","size":117989,"stargazers_count":155,"open_issues_count":541,"forks_count":54,"subscribers_count":25,"default_branch":"master","last_synced_at":"2025-10-23T16:42:58.897Z","etag":null,"topics":["data-management","data-science","earth-science","ecoinformatics","ecology","environment","esip","obofoundry","ontology","planetary-science","semantics","sustainable-development-goals"],"latest_commit_sha":null,"homepage":"http://www.environmentontology.org","language":"Makefile","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"cc0-1.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/EnvironmentOntology.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":"CONTRIBUTING.md","funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null}},"created_at":"2015-03-28T19:22:08.000Z","updated_at":"2025-10-22T13:30:49.000Z","dependencies_parsed_at":"2024-02-04T07:45:53.319Z","dependency_job_id":"74086096-33ea-4275-bef9-a81c3882848f","html_url":"https://github.com/EnvironmentOntology/envo","commit_stats":{"total_commits":1812,"total_committers":37,"mean_commits":"48.972972972972975","dds":0.5745033112582781,"last_synced_commit":"8f591ff9e19f5fabb682cb9a3c2d88bae01f1ef9"},"previous_names":[],"tags_count":30,"template":false,"template_full_name":null,"purl":"pkg:github/EnvironmentOntology/envo","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/EnvironmentOntology%2Fenvo","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/EnvironmentOntology%2Fenvo/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/EnvironmentOntology%2Fenvo/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/EnvironmentOntology%2Fenvo/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/EnvironmentOntology","download_url":"https://codeload.github.com/EnvironmentOntology/envo/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/EnvironmentOntology%2Fenvo/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":281689353,"owners_count":26544620,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-10-29T02:00:06.901Z","response_time":59,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"owner":{"login":"EnvironmentOntology","name":"The Environment Ontology","uuid":"11706544","kind":"organization","description":"The public code repository of the Environmental Ontology project and GAZ, a gazetteer build on ontological principles","email":null,"website":"http://www.environmentontology.org","location":null,"twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/11706544?v=4","repositories_count":5,"last_synced_at":"2023-03-01T09:10:31.947Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/EnvironmentOntology","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-12T07:30:41.274Z","updated_at":"2023-03-01T09:10:32.000Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/EnvironmentOntology","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/EnvironmentOntology/repositories"},"packages":[],"commits":{"id":1254642,"full_name":"EnvironmentOntology/envo","default_branch":"master","total_commits":1835,"total_committers":38,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":48.28947368421053,"dds":0.5782016348773842,"past_year_total_commits":23,"past_year_total_committers":7,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":3.2857142857142856,"past_year_dds":0.7391304347826086,"last_synced_at":"2025-10-29T06:47:44.910Z","last_synced_commit":"277923374a245312d14d413340abeafb1d7507ae","created_at":"2023-03-27T11:50:22.865Z","updated_at":"2025-10-29T06:45:41.655Z","committers":[{"name":"pbuttigieg","email":"p.buttigieg@gmail.com","login":"pbuttigieg","count":774},{"name":"Chris Mungall","email":"cjm@berkeleybop.org","login":"cmungall","count":440},{"name":"Bill Duncan","email":"wdduncan@gmail.com","login":"wdduncan","count":189},{"name":"kaiiam","email":"kblumberg@email.arizona.edu","login":"kaiiam","count":87},{"name":"iwilkie","email":"77722641+iwilkie","login":"iwilkie","count":45},{"name":"meichen-liu","email":"77730883+meichen-liu","login":"meichen-liu","count":38},{"name":"Mark Andrew Miller","email":"MAM@lbl.gov","login":"turbomam","count":38},{"name":"stevenchong","email":"ssfchong@gmail.com","login":"stevenchong","count":27},{"name":"Kai","email":"kblumber@mpi-bremen.de","login":null,"count":27},{"name":"raissameyer","email":"rmeyer@mpi-bremen.de","login":"raissameyer","count":25},{"name":"Harshad Hegde","email":"hegdehb@gmail.com","login":"hrshdhgd","count":25},{"name":"Nico Matentzoglu","email":"nicolas.matentzoglu@gmail.com","login":"matentzn","count":22},{"name":"Martin Larralde","email":"martin.larralde@ens-cachan.fr","login":null,"count":12},{"name":"rduerr","email":"ruth.duerr@ronininstitute.org","login":"rduerr","count":11},{"name":"Damion Dooley","email":"damion.dooley@bccdc.ca","login":null,"count":10},{"name":"Marie-Angélique Laporte","email":"marieangelique.laporte@gmail.com","login":"marieALaporte","count":10},{"name":"Anne Thessen","email":"annethessen@gmail.com","login":"diatomsRcool","count":7},{"name":"Lauren","email":"49169837+laurenechan","login":"laurenechan","count":6},{"name":"Tim Alamenciak","email":"tim.alamenciak@gmail.com","login":"timalamenciak","count":6},{"name":"Eric Douglass","email":"edouglass@lbl.gov","login":"dougli1sqrd","count":5},{"name":"Krishna Udaiwal","email":"krishna.u@hotmail.com","login":"KrishnaTO","count":5},{"name":"Charles Tapley Hoyt","email":"cthoyt@gmail.com","login":"cthoyt","count":4},{"name":"Simon Cox","email":"simon.cox@csiro.au","login":"dr-shorthair","count":4},{"name":"Jimena","email":"73355288+mia-lg","login":"mia-lg","count":2},{"name":"Shinya SUZUKI","email":"TaskeHAMANO","login":"TaskeHAMANO","count":2},{"name":"renzo","email":"renzok","login":"renzok","count":2},{"name":"omahs","email":"73983677+omahs","login":"omahs","count":1},{"name":"kgcl-change-request","email":"kgcl-change-request","login":"kgcl-change-request","count":1},{"name":"cjmungall","email":"cjmungall@lbl.gov","login":"uberon","count":1},{"name":"Mark Miller","email":"MAM@MAM-M74.lan","login":null,"count":1},{"name":"bbop.jenkins@gmail.com","email":"bbop.jenkins@gmail.com@580045df-34ba-83b6-cc9f-8bc715d7435f","login":null,"count":1},{"name":"brandonw","email":"280944+brandonnodnarb","login":"brandonnodnarb","count":1},{"name":"Ulas Karaoz","email":"ukaraoz@lbl.gov","login":"ukaraoz","count":1},{"name":"Sierra Moxon","email":"smoxon@lbl.gov","login":"sierra-moxon","count":1},{"name":"John Judkins","email":"jjudkins@sas.upenn.edu","login":"johnwjudkins","count":1},{"name":"Jim Balhoff","email":"balhoff@gmail.com","login":"balhoff","count":1},{"name":"Damion Dooley","email":"damion_dooley@sfu.ca","login":"ddooley","count":1},{"name":"Antonarctica","email":"antonarctica@gmail.com","login":"Antonarctica","count":1}],"past_year_committers":[{"name":"Tim Alamenciak","email":"tim.alamenciak@gmail.com","login":"timalamenciak","count":6},{"name":"Nico Matentzoglu","email":"nicolas.matentzoglu@gmail.com","login":"matentzn","count":5},{"name":"Mark Andrew Miller","email":"MAM@lbl.gov","login":"turbomam","count":5},{"name":"Pier Luigi Buttigieg","email":"p.buttigieg@gmail.com","login":"pbuttigieg","count":3},{"name":"Chris Mungall","email":"cjm@berkeleybop.org","login":"cmungall","count":2},{"name":"Sierra Moxon","email":"smoxon@lbl.gov","login":"sierra-moxon","count":1},{"name":"Jim Balhoff","email":"balhoff@gmail.com","login":"balhoff","count":1}],"commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/EnvironmentOntology%2Fenvo/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-10-29T00:00:18.766Z","repositories_count":6089584,"commits_count":922516440,"contributors_count":35983866,"owners_count":1109633,"icon_url":"https://github.com/github.png","host_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories"}},"issues_stats":{"full_name":"EnvironmentOntology/envo","html_url":"https://github.com/EnvironmentOntology/envo","last_synced_at":"2025-10-25T11:16:42.339Z","status":"active","issues_count":1224,"pull_requests_count":466,"avg_time_to_close_issue":54776825.78654971,"avg_time_to_close_pull_request":5592763.468609866,"issues_closed_count":684,"pull_requests_closed_count":445,"pull_request_authors_count":36,"issue_authors_count":125,"avg_comments_per_issue":3.09640522875817,"avg_comments_per_pull_request":2.3304721030042916,"merged_pull_requests_count":345,"bot_issues_count":0,"bot_pull_requests_count":14,"past_year_issues_count":62,"past_year_pull_requests_count":59,"past_year_avg_time_to_close_issue":1355477.5,"past_year_avg_time_to_close_pull_request":1462233.5333333334,"past_year_issues_closed_count":20,"past_year_pull_requests_closed_count":44,"past_year_pull_request_authors_count":8,"past_year_issue_authors_count":19,"past_year_avg_comments_per_issue":1.3225806451612903,"past_year_avg_comments_per_pull_request":1.3389830508474576,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":8,"past_year_merged_pull_requests_count":31,"created_at":"2023-05-09T10:38:04.721Z","updated_at":"2025-10-25T11:16:42.339Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/EnvironmentOntology%2Fenvo","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/EnvironmentOntology%2Fenvo/issues","issue_labels_count":{"auto-migrated":208,"enhancement":189,"in editor's version":97,"SDG Ontology Framework":56,"soil":42,"axiomatization":41,"Type-Defect":41,"New term":40,"interesting-discussion":34,"bug":32,"GOLD/EBI-MGNIFY":25,"high priority":25,"Hazards":21,"question":20,"class available!":20,"possible domain conflict":18,"ecosystem classification":18,"mapping":17,"PR submitted":16,"MIxS":16,"Modify term":14,"SWEET":13,"Planet Microbe":11,"FOODON":9,"help wanted":9,"simple fix":9,"low priority":8,"decsion-required":7,"wontfix":7,"thoughts":7,"documentation":6,"Closeable issue":6,"technical":5,"UA-SRC":4,"Usability":4,"general-maintenance":3,"import":3,"BCODMO":2,"Type-Review":2,"pattern":2,"duplicate":1},"pull_request_labels_count":{"enhancement":55,"New term":30,"SDG Ontology Framework":30,"Automated":24,"soil":15,"Modify term":10,"bug":10,"axiomatization":9,"mapping":8,"interesting-discussion":3,"general-maintenance":3,"Hazards":2,"MIxS":2,"thoughts":2,"decsion-required":2,"release":1,"import":1,"pattern":1,"SWEET":1,"GOLD/EBI-MGNIFY":1,"help wanted":1,"in editor's version":1},"issue_author_associations_count":{"NONE":475,"MEMBER":455,"CONTRIBUTOR":251,"COLLABORATOR":43},"pull_request_author_associations_count":{"CONTRIBUTOR":231,"MEMBER":159,"COLLABORATOR":52,"NONE":24},"issue_authors":{"cmungall":276,"pbuttigieg":179,"GoogleCodeExporter":134,"celineaubert":85,"kaiiam":73,"turbomam":47,"jmkeil":27,"dr-shorthair":24,"VarshaKhodiyar":21,"stevenchong":18,"wdduncan":17,"rduerr":15,"iwilkie":15,"jagadishcs":13,"meichen-liu":12,"ddooley":12,"TrisSN":11,"timalamenciak":10,"zhengj2007":10,"Public-Health-Bioinformatics":10,"Garybc":9,"ramonawalls":8,"raissameyer":8,"matentzn":7,"laurenechan":6,"diatomsRcool":6,"johnwjudkins":5,"ikostadi":5,"easr":5,"tscottm":4,"tnn111":4,"miriamgrace":4,"Clarissa-Feio":4,"gyselbeer":4,"mark-jensen":4,"only1chunts":4,"kgcl-change-request":4,"jhpoelen":3,"dillerm":3,"renzok":3,"markusstocker":3,"KrishnaTO":3,"YasinEl":3,"realmarcin":3,"balhoff":3,"msweetlove":3,"thearyung":3,"sakelly":3,"nicolevasilevsky":2,"misayasu":2,"cmrn-rhi":2,"StellaEggels":2,"ukaraoz":2,"josieburgin":2,"BarryFen":2,"sierra-moxon":2,"nleguillarme":2,"gouttegd":2,"reality":2,"Antonarctica":2,"pmidford":2,"marieALaporte":2,"Mttbnchtt":1,"gecko1990":1,"althonos":1,"irene0420":1,"JEDamerow":1,"stheil15":1,"LornaMGnify":1,"cooperl09":1,"IanDMedeiros":1,"kukay003":1,"mdebellis":1,"ferrellb":1,"gwemon":1,"JansenLudger":1,"LilyAndres":1,"mdmtrv":1,"richardostler":1,"cbarcl01":1,"tuli":1,"johanneswerner":1,"brownag":1,"lstanish":1,"cthoyt":1,"Dalalghamdi":1,"adelheenan":1,"wiegandn":1,"mia-lgo":1,"KaylaPenn":1,"lschriml":1,"olekto":1,"simroux":1,"nlharris":1,"sebastianduesing":1,"davidgarciam":1,"addiehl":1,"Anoosha-Sehar":1,"StantonMartin":1,"smrgeoinfo":1,"CommonClimate":1,"tantascamila":1,"DavidFichtmueller":1,"Aqua1ung":1,"BrandonBennett99":1,"smithGit":1,"jimhu-tamu":1,"cstoeckert":1,"jdeck88":1,"baskaufs":1,"trashbirdecology":1,"pyilmaz":1,"GH-Emily":1,"mwieczor0":1,"byroncrump":1,"sujaypatil96":1,"brandonnodnarb":1,"cfrancois7":1,"mschecht":1,"cpavloud":1,"maglau":1,"Bayesianworld":1,"SergioAlias":1,"kanachri":1,"BoMeyering":1},"pull_request_authors":{"cmungall":88,"pbuttigieg":70,"turbomam":51,"kaiiam":36,"KrishnaTO":35,"matentzn":28,"hrshdhgd":16,"wdduncan":15,"stevenchong":14,"timalamenciak":14,"github-actions[bot]":14,"iwilkie":14,"meichen-liu":13,"raissameyer":9,"laurenechan":6,"ddooley":6,"dr-shorthair":5,"marieALaporte":4,"diatomsRcool":3,"cthoyt":3,"dougli1sqrd":2,"balhoff":2,"sierra-moxon":2,"renzok":2,"aclum":2,"rduerr":2,"cpavloud":1,"johnwjudkins":1,"TaskeHAMANO":1,"omahs":1,"Antonarctica":1,"brandonnodnarb":1,"althonos":1,"ukaraoz":1,"Daniel-Mietchen":1,"mia-lgo":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-10-25T00:00:16.593Z","repositories_count":11171675,"issues_count":34743158,"pull_requests_count":112625339,"authors_count":11041342,"icon_url":"https://github.com/github.png","host_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories","owners_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/owners","authors_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors"},"past_year_issue_labels_count":{"enhancement":3,"New term":1,"axiomatization":1},"past_year_pull_request_labels_count":{"Automated":8,"enhancement":4,"Modify term":2,"New term":2},"past_year_issue_author_associations_count":{"NONE":22,"CONTRIBUTOR":21,"MEMBER":19},"past_year_pull_request_author_associations_count":{"CONTRIBUTOR":31,"NONE":11,"MEMBER":9,"COLLABORATOR":8},"past_year_issue_authors":{"pbuttigieg":15,"turbomam":14,"timalamenciak":9,"cmungall":4,"YasinEl":3,"sierra-moxon":2,"StellaEggels":2,"dillerm":2,"gouttegd":1,"gwemon":1,"JansenLudger":1,"olekto":1,"GH-Emily":1,"sebastianduesing":1,"SergioAlias":1,"sujaypatil96":1,"tuli":1,"cmrn-rhi":1,"balhoff":1},"past_year_pull_request_authors":{"turbomam":16,"timalamenciak":14,"github-actions[bot]":8,"matentzn":8,"pbuttigieg":6,"cmungall":3,"balhoff":2,"sierra-moxon":2},"maintainers":[{"login":"cmungall","count":364,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/cmungall"},{"login":"pbuttigieg","count":249,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/pbuttigieg"},{"login":"matentzn","count":35,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/matentzn"},{"login":"stevenchong","count":32,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/stevenchong"},{"login":"raissameyer","count":17,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/raissameyer"},{"login":"johnwjudkins","count":6,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/johnwjudkins"},{"login":"miriamgrace","count":4,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/miriamgrace"},{"login":"nlharris","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/nlharris"},{"login":"wdduncan","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/wdduncan"}],"active_maintainers":[{"login":"pbuttigieg","count":21,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/pbuttigieg"},{"login":"matentzn","count":8,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/matentzn"},{"login":"cmungall","count":7,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/cmungall"}]},"events":{"total":{"ForkEvent":2,"CreateEvent":29,"ReleaseEvent":3,"IssuesEvent":92,"WatchEvent":15,"DeleteEvent":14,"MemberEvent":1,"IssueCommentEvent":235,"PushEvent":80,"GollumEvent":2,"PullRequestReviewCommentEvent":43,"PullRequestReviewEvent":72,"PullRequestEvent":51},"last_year":{"ForkEvent":2,"CreateEvent":29,"ReleaseEvent":3,"IssuesEvent":90,"WatchEvent":15,"DeleteEvent":14,"MemberEvent":1,"IssueCommentEvent":234,"PushEvent":80,"GollumEvent":2,"PullRequestReviewCommentEvent":43,"PullRequestReviewEvent":72,"PullRequestEvent":50}},"keywords":["data-management","data-science","earth-science","ecoinformatics","ecology","environment","esip","obofoundry","ontology","planetary-science","semantics","sustainable-development-goals"],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/qc.yml","sha":null,"kind":"manifest","created_at":"2023-02-10T16:16:11.178Z","updated_at":"2023-02-10T16:16:11.178Z","repository_link":"https://github.com/EnvironmentOntology/envo/blob/master/.github/workflows/qc.yml","dependencies":[{"id":7534202808,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/ontobot.yml","sha":null,"kind":"manifest","created_at":"2023-09-21T19:33:36.373Z","updated_at":"2023-09-21T19:33:36.373Z","repository_link":"https://github.com/EnvironmentOntology/envo/blob/master/.github/workflows/ontobot.yml","dependencies":[{"id":13856743506,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v3","direct":true,"kind":"composite","optional":false},{"id":13856743507,"package_name":"actions/github-script","ecosystem":"actions","requirements":"v6","direct":true,"kind":"composite","optional":false},{"id":13856743508,"package_name":"peter-evans/create-pull-request","ecosystem":"actions","requirements":"v5","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/sssom-qc.yml","sha":null,"kind":"manifest","created_at":"2023-09-21T19:33:37.455Z","updated_at":"2023-09-21T19:33:37.455Z","repository_link":"https://github.com/EnvironmentOntology/envo/blob/master/.github/workflows/sssom-qc.yml","dependencies":[{"id":13856743510,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]}],"score":10.182935820060806,"created_at":"2023-09-19T11:41:51.516Z","updated_at":"2026-04-10T03:30:49.899Z","avatar_url":"https://github.com/EnvironmentOntology.png","language":"Makefile","category":"Sustainable Development","sub_category":"Taxonomy and Ontology","monthly_downloads":0,"total_dependent_repos":0,"total_dependent_packages":0,"readme":"[![Build Status](https://travis-ci.org/EnvironmentOntology/envo.svg?branch=master)](https://travis-ci.org/EnvironmentOntology/envo)\n[![DOI](https://zenodo.org/badge/13996/EnvironmentOntology/envo.svg)](https://zenodo.org/badge/latestdoi/13996/EnvironmentOntology/envo)\n\n\n# The Environment Ontology\n\n\nA description of the Environment Ontology (ENVO) is published in the Journal of Biomedical Semantics in an article by [Buttigieg et al.](http://dx.doi.org/10.1186/2041-1480-4-43) and a paper describing its development until mid-2016 is available [here](http://dx.doi.org/10.1186/s13326-016-0097-6) \n\nOur latest releases are described [here](https://github.com/EnvironmentOntology/envo/releases)\n\nMore information and guides for using ENVO in annotation exercises are available at www.environmentontology.org\n\nPlease note: ENVO is not an \"authority\" in itself, but we do try to provide a semantic/ontological expression of existing authoritative classifications alongside project-based or individual knowledge. We aim to create a FAIR compliant space where expressions of this knowledge can co-exist and interoperate. \n\n## Aim and Scope\n\nENVO is a domain ontology concerned with \"environments\" of all kinds and aims to promote standardisation and interoperability of diverse data sets through the concise, controlled description of environment types across several levels of granularity. It is primarily concerned with environments as encountered in ecological applications, but is able to accommodate alternative needs.\n\nENVO currently deals with 'environmental systems' (i.e. environments) particularly 'biomes' and environments determined by a material entity that assumes the role of an 'environmental feature' (e.g. a digestive tract environment). It also handles 'environmental materials' like soil, water, and so on. \n\n## Documentation\n\nCheck out our [wiki](https://github.com/EnvironmentOntology/envo/wiki) for more documentation, including an [editors' and contributors' guide](https://github.com/EnvironmentOntology/envo/wiki/Adding-classes-to-ENVO)\n\n## Versions\n### Stable release versions\nENVO's latest release version can be downloaded in OWL and OBO format from the following links:\nhttp://purl.obolibrary.org/obo/envo.owl\n\nhttp://purl.obolibrary.org/obo/envo.obo\n\nPlease note that the files above include all the imported classes from ontologies referenced by ENVO. If you would like a \"simple\" version with only ENVO classes, please download it from:\nhttp://purl.obolibrary.org/obo/subsets/envo-basic.obo\n\nPlease note that the OBO files are now created from the OWL file. Due to limitations in the OBO format, envo.obo will not offer as much expressibility as envo.owl. Further, **to open envo.obo in OBOEdit 2**, please ensure that dangling axioms are allowed using the advanced view of the \"Load Ontology\" window.\n\n### Subsets\nA subset is a trimmed down version of ENVO. We create subsets for users who want just a few terms for their work. Read more about subsets on [this wiki page](https://github.com/EnvironmentOntology/envo/wiki/Subsets). Several subsets of ENVO classes are identified with the \"in_subset\" annotation property.\n\nA simple TSV of the subsets (including their labels, definitions, and URIs) is available [here](https://github.com/EnvironmentOntology/envo/blob/master/src/envo/reports/envo-subsetTable.tsv)\n\nMore subsets can be generated on request (please post such requests on our [issue tracker](https://github.com/EnvironmentOntology/envo/issues).\n\n### Editors' version\nThe editors' version of ENVO, envo-edit.owl, can be downloaded here:\nhttps://github.com/EnvironmentOntology/envo/blob/master/src/envo/envo-edit.owl\nThis version is subject to frequent change and should be used with caution.\n\n## Contact\nPlease use this GitHub repository's [Issue tracker](https://github.com/EnvironmentOntology/envo/issues) to request new terms/classes or report errors or specific concerns related to the ontology.\n\nIf you would like to send a more general comment or question to the EnvO mailing list, please [subscribe and post a message](https://lists.sourceforge.net/lists/listinfo/obo-envo). This open mailing list is the best place to post general questions or comments for discussion in the wider EnvO community. Please note, your posts will be stored in [publicly accessible archives](http://sourceforge.net/mailarchive/forum.php?forum_name=obo-envo).\n\n\n## History\nThe repository was moved to this location from https://code.google.com/p/envo/ in March 2015. The legacy issues were automatically migrated. The PURL targets have been updated accordingly.\n","funding_links":[],"readme_doi_urls":["http://dx.doi.org/10.1186/2041-1480-4-43","http://dx.doi.org/10.1186/s13326-016-0097-6"],"works":{"http://dx.doi.org/10.1186/2041-1480-4-43":{"id":"https://openalex.org/W2097877306","doi":"https://doi.org/10.1186/2041-1480-4-43","title":"The environment ontology: contextualising biological and biomedical entities","display_name":"The environment ontology: contextualising biological and biomedical entities","publication_year":2013,"publication_date":"2013-01-01","ids":{"openalex":"https://openalex.org/W2097877306","doi":"https://doi.org/10.1186/2041-1480-4-43","mag":"2097877306","pmid":"https://pubmed.ncbi.nlm.nih.gov/24330602","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/3904460"},"language":"en","primary_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-4-43","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-4-43","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310320256"],"host_organization_lineage_names":["Springer Nature","BioMed Central"],"type":"journal"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},"type":"article","type_crossref":"journal-article","open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-4-43","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5091806083","display_name":"Pier Luigi Buttigieg","orcid":"https://orcid.org/0000-0002-4366-3088"},"institutions":[{"id":"https://openalex.org/I127251866","display_name":"Alfred-Wegener-Institut Helmholtz-Zentrum für Polar- und Meeresforschung","ror":"https://ror.org/032e6b942","country_code":"DE","type":"facility","lineage":["https://openalex.org/I127251866","https://openalex.org/I1305996414"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Pier Buttigieg","raw_affiliation_string":"HGF-MPG Research Group on Deep-Sea Ecology and Technology, Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research, Bremerhaven, Germany","raw_affiliation_strings":["HGF-MPG Research Group on Deep-Sea Ecology and Technology, Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research, Bremerhaven, Germany"]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059921894","display_name":"Norman Morrison","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Norman Morrison","raw_affiliation_string":"","raw_affiliation_strings":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045066788","display_name":"Barry Smith","orcid":"https://orcid.org/0000-0003-1384-116X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Barry Smith","raw_affiliation_string":"","raw_affiliation_strings":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002223413","display_name":"Christopher J. Mungall","orcid":"https://orcid.org/0000-0002-6601-2165"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Christopher J Mungall","raw_affiliation_string":"","raw_affiliation_strings":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5076920798","display_name":"Suzanna Lewis","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Suzanna E Lewis","raw_affiliation_string":"","raw_affiliation_strings":[]}],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5091806083"],"corresponding_institution_ids":["https://openalex.org/I127251866"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459,"provenance":"doaj"},"apc_paid":{"value":1190,"currency":"GBP","value_usd":1459,"provenance":"doaj"},"has_fulltext":true,"fulltext_origin":"pdf","cited_by_count":251,"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"4","issue":"1","first_page":"43","last_page":"43"},"is_retracted":false,"is_paratext":false,"keywords":[{"keyword":"environment ontology","score":0.7656},{"keyword":"biomedical entities","score":0.5396},{"keyword":"contextualising","score":0.4021}],"concepts":[{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.85656166},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.82868016},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.666561},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6062089},{"id":"https://openalex.org/C78726541","wikidata":"https://www.wikidata.org/wiki/Q3882785","display_name":"Upper ontology","level":3,"score":0.52889794},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.5054188},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.5050767},{"id":"https://openalex.org/C137003198","wikidata":"https://www.wikidata.org/wiki/Q7247296","display_name":"Process ontology","level":3,"score":0.47709566},{"id":"https://openalex.org/C2778820784","wikidata":"https://www.wikidata.org/wiki/Q1027508","display_name":"Ontology engineering","level":4,"score":0.4686923},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4477428},{"id":"https://openalex.org/C22550185","wikidata":"https://www.wikidata.org/wiki/Q7095047","display_name":"Ontology-based data integration","level":3,"score":0.44715118},{"id":"https://openalex.org/C98893333","wikidata":"https://www.wikidata.org/wiki/Q4339878","display_name":"Ontology alignment","level":4,"score":0.39829832},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.24900758},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0}],"mesh":[],"locations_count":8,"locations":[{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-4-43","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-4-43","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310320256"],"host_organization_lineage_names":["Springer Nature","BioMed Central"],"type":"journal"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://zenodo.org/record/10927","pdf_url":"https://zenodo.org/record/10927/files/The_environment_ontology_contextualising.pdf","source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":["European Organization for Nuclear Research"],"type":"repository"},"license":"public-domain","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1626676","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":["Office of Scientific and Technical Information"],"type":"repository"},"license":null,"version":"submittedVersion","is_accepted":false,"is_published":false},{"is_oa":true,"landing_page_url":"https://europepmc.org/articles/pmc3904460","pdf_url":"https://europepmc.org/articles/pmc3904460?pdf=render","source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":["European Bioinformatics Institute"],"type":"repository"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://epic.awi.de/id/eprint/43649/1/envo.pdf","pdf_url":"https://epic.awi.de/id/eprint/43649/1/envo.pdf","source":{"id":"https://openalex.org/S4306400378","display_name":"Helmholtz-Zentrum für Polar-und Meeresforschung (Alfred-Wegener-Institut)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I2799732068","host_organization_name":"Royal Prince Alfred Hospital","host_organization_lineage":["https://openalex.org/I2799732068"],"host_organization_lineage_names":["Royal Prince Alfred Hospital"],"type":"repository"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://philpapers.org/rec/BUTTEO-3","pdf_url":"https://philpapers.org/archive/BUTTEO-3.pdf","source":{"id":"https://openalex.org/S4306402131","display_name":"PhilPapers (PhilPapers Foundation)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3904460","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":["National Institutes of Health"],"type":"repository"},"license":null,"version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24330602","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":["National Institutes of Health"],"type":"repository"},"license":null,"version":null,"is_accepted":false,"is_published":false}],"best_oa_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/2041-1480-4-43","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/2041-1480-4-43","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310320256"],"host_organization_lineage_names":["Springer Nature","BioMed Central"],"type":"journal"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/12","display_name":"Responsible consumption and production","score":0.58},{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.34},{"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure","score":0.13},{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.12}],"grants":[],"referenced_works_count":25,"referenced_works":["https://openalex.org/W1525521077","https://openalex.org/W1985283768","https://openalex.org/W1997359485","https://openalex.org/W1999590523","https://openalex.org/W2003012803","https://openalex.org/W2028999803","https://openalex.org/W2039581910","https://openalex.org/W2057301737","https://openalex.org/W2057970678","https://openalex.org/W2073332363","https://openalex.org/W2076821547","https://openalex.org/W2096704019","https://openalex.org/W2103017472","https://openalex.org/W2107093792","https://openalex.org/W2113142309","https://openalex.org/W2116034137","https://openalex.org/W2128769815","https://openalex.org/W2128993230","https://openalex.org/W2129687578","https://openalex.org/W2135255500","https://openalex.org/W2156689933","https://openalex.org/W2160870047","https://openalex.org/W2165000074","https://openalex.org/W2272473773","https://openalex.org/W3007065685"],"related_works":["https://openalex.org/W149627178","https://openalex.org/W4206428734","https://openalex.org/W1794266373","https://openalex.org/W2608149786","https://openalex.org/W334115264","https://openalex.org/W2102229151","https://openalex.org/W2012420033","https://openalex.org/W2365397974","https://openalex.org/W152870918","https://openalex.org/W2732632690"],"ngrams_url":"https://api.openalex.org/works/W2097877306/ngrams","abstract_inverted_index":{"As":[0],"biological":[1,12],"and":[2,20,85],"biomedical":[3],"research":[4],"increasingly":[5],"reference":[6],"the":[7,11,16,64,104],"environmental":[8],"context":[9],"of":[10,22,48,67],"entities":[13],"under":[14],"study,":[15],"need":[17],"for":[18,43],"formalisation":[19],"standardisation":[21],"environment":[23],"descriptors":[24],"is":[25,32,90,99],"growing.":[26],"The":[27,88],"Environment":[28],"Ontology":[29],"(ENVO;":[30],"http://www.environmentontology.org)":[31],"a":[33,45],"community-led,":[34],"open":[35,59],"project":[36],"which":[37],"seeks":[38],"to":[39,51,62,71,107],"provide":[40],"an":[41,58,95],"ontology":[42,75,89],"specifying":[44],"wide":[46],"range":[47],"environments":[49],"relevant":[50],"multiple":[52],"life":[53],"science":[54],"disciplines":[55],"and,":[56],"through":[57],"participation":[60],"model,":[61],"accommodate":[63],"terminological":[65],"requirements":[66],"all":[68],"those":[69],"needing":[70],"annotate":[72],"data":[73],"using":[74],"classes.":[76],"This":[77],"paper":[78],"summarises":[79],"ENVO's":[80],"motivation,":[81],"content,":[82],"structure,":[83],"adoption,":[84],"governance":[86],"approach.":[87],"available":[91,101],"from":[92],"http://purl.obolibrary.org/obo/envo.owl":[93],"-":[94],"OBO":[96],"format":[97],"version":[98],"also":[100],"by":[102],"switching":[103],"file":[105],"suffix":[106],"\"obo\".":[108]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W2097877306","counts_by_year":[{"year":2023,"cited_by_count":29},{"year":2022,"cited_by_count":58},{"year":2021,"cited_by_count":17},{"year":2020,"cited_by_count":26},{"year":2019,"cited_by_count":17},{"year":2018,"cited_by_count":21},{"year":2017,"cited_by_count":20},{"year":2016,"cited_by_count":33},{"year":2015,"cited_by_count":17},{"year":2014,"cited_by_count":9},{"year":2013,"cited_by_count":1}],"updated_date":"2023-12-18T07:09:55.057694","created_date":"2016-06-24"},"http://dx.doi.org/10.1186/s13326-016-0097-6":{"id":"https://openalex.org/W2521644033","doi":"https://doi.org/10.1186/s13326-016-0097-6","title":"The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation","display_name":"The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation","publication_year":2016,"publication_date":"2016-09-23","ids":{"openalex":"https://openalex.org/W2521644033","doi":"https://doi.org/10.1186/s13326-016-0097-6","mag":"2521644033","pmid":"https://pubmed.ncbi.nlm.nih.gov/27664130","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/5035502"},"language":"en","primary_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-016-0097-6","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-016-0097-6","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310320256"],"host_organization_lineage_names":["Springer Nature","BioMed Central"],"type":"journal"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},"type":"article","type_crossref":"journal-article","open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-016-0097-6","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5091806083","display_name":"Pier Luigi Buttigieg","orcid":"https://orcid.org/0000-0002-4366-3088"},"institutions":[{"id":"https://openalex.org/I127251866","display_name":"Alfred-Wegener-Institut Helmholtz-Zentrum für Polar- und Meeresforschung","ror":"https://ror.org/032e6b942","country_code":"DE","type":"facility","lineage":["https://openalex.org/I127251866","https://openalex.org/I1305996414"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Pier Luigi Buttigieg","raw_affiliation_string":"Alfred Wegener Institut, Helmholtz Zentrum für Polar- und Meeresforschung, Bremerhaven, Germany","raw_affiliation_strings":["Alfred Wegener Institut, Helmholtz Zentrum für Polar- und Meeresforschung, Bremerhaven, Germany"]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025850900","display_name":"Evangelos Pafilis","orcid":"https://orcid.org/0000-0001-5079-0125"},"institutions":[{"id":"https://openalex.org/I4210131924","display_name":"Hellenic Centre for Marine Research","ror":"https://ror.org/038kffh84","country_code":"GR","type":"facility","lineage":["https://openalex.org/I4210131924"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Evangelos Pafilis","raw_affiliation_string":"Institute of Marine Biology Biotechnology and Aquaculture, Hellenic Centre for Marine Research, Heraklion, Greece","raw_affiliation_strings":["Institute of Marine Biology Biotechnology and Aquaculture, Hellenic Centre for Marine Research, Heraklion, Greece"]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076920798","display_name":"Suzanna Lewis","orcid":null},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Suzanna E. Lewis","raw_affiliation_string":"Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, USA","raw_affiliation_strings":["Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, USA"]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011057199","display_name":"Mark Schildhauer","orcid":null},"institutions":[{"id":"https://openalex.org/I4210100421","display_name":"National Center for Ecological Analysis and Synthesis","ror":"https://ror.org/0146z4r19","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I154570441","https://openalex.org/I4210100421"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mark P. Schildhauer","raw_affiliation_string":"National Center for Ecological Analysis and Synthesis, Univ. of Calif. Santa Barbara, Santa Barbara, USA","raw_affiliation_strings":["National Center for Ecological Analysis and Synthesis, Univ. of Calif. Santa Barbara, Santa Barbara, USA"]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015253000","display_name":"Ramona Walls","orcid":"https://orcid.org/0000-0001-8815-0078"},"institutions":[],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ramona L. Walls","raw_affiliation_string":"CyVerse, Thomas J. Keating Bioresearch Building, Tucson, USA","raw_affiliation_strings":["CyVerse, Thomas J. Keating Bioresearch Building, Tucson, USA"]},{"author_position":"last","author":{"id":"https://openalex.org/A5088003532","display_name":"Christopher J. Mungall","orcid":null},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christopher J. Mungall","raw_affiliation_string":"Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, USA","raw_affiliation_strings":["Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, USA"]}],"countries_distinct_count":3,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5091806083"],"corresponding_institution_ids":["https://openalex.org/I127251866"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459,"provenance":"doaj"},"apc_paid":{"value":1190,"currency":"GBP","value_usd":1459,"provenance":"doaj"},"has_fulltext":true,"fulltext_origin":"pdf","cited_by_count":170,"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"7","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"keywords":[{"keyword":"environment ontology","score":0.6937},{"keyword":"semantic density","score":0.4392}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8169297},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.6194834},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.56236637},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.53504264},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.52041847},{"id":"https://openalex.org/C139458680","wikidata":"https://www.wikidata.org/wiki/Q12184942","display_name":"Interoperation","level":3,"score":0.47943205},{"id":"https://openalex.org/C78726541","wikidata":"https://www.wikidata.org/wiki/Q3882785","display_name":"Upper ontology","level":3,"score":0.45945626},{"id":"https://openalex.org/C2778012447","wikidata":"https://www.wikidata.org/wiki/Q1034415","display_name":"Scope (computer science)","level":2,"score":0.45917276},{"id":"https://openalex.org/C101230327","wikidata":"https://www.wikidata.org/wiki/Q826165","display_name":"Web Ontology Language","level":3,"score":0.43097672},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.41609025},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.3831992},{"id":"https://openalex.org/C98893333","wikidata":"https://www.wikidata.org/wiki/Q4339878","display_name":"Ontology alignment","level":4,"score":0.17368788},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[],"locations_count":8,"locations":[{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-016-0097-6","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-016-0097-6","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310320256"],"host_organization_lineage_names":["Springer Nature","BioMed Central"],"type":"journal"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://zenodo.org/record/160083","pdf_url":"https://zenodo.org/record/160083/files/13326_2016_Article_97.pdf","source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":["European Organization for Nuclear Research"],"type":"repository"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":false,"landing_page_url":"https://www.osti.gov/biblio/1618945","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":["Office of Scientific and Technical Information"],"type":"repository"},"license":null,"version":null,"is_accepted":false,"is_published":false},{"is_oa":false,"landing_page_url":"https://www.osti.gov/biblio/1377498","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":["Office of Scientific and Technical Information"],"type":"repository"},"license":null,"version":null,"is_accepted":false,"is_published":false},{"is_oa":true,"landing_page_url":"https://europepmc.org/articles/pmc5035502","pdf_url":"https://europepmc.org/articles/pmc5035502?pdf=render","source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":["European Bioinformatics Institute"],"type":"repository"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"http://hdl.handle.net/21.11116/0000-0003-AEE4-8","pdf_url":"https://pure.mpg.de/pubman/item/item_3060235_1/component/file_3060236/Buttigieg_2016_03_f.pdf","source":{"id":"https://openalex.org/S4306400655","display_name":"MPG.PuRe (Max Planck Society)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I149899117","host_organization_name":"Max Planck Society","host_organization_lineage":["https://openalex.org/I149899117"],"host_organization_lineage_names":["Max Planck Society"],"type":"repository"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://epic.awi.de/id/eprint/41825/1/envo2016.pdf","pdf_url":"https://epic.awi.de/id/eprint/41825/1/envo2016.pdf","source":{"id":"https://openalex.org/S4306400378","display_name":"Helmholtz-Zentrum für Polar-und Meeresforschung (Alfred-Wegener-Institut)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I2799732068","host_organization_name":"Royal Prince Alfred Hospital","host_organization_lineage":["https://openalex.org/I2799732068"],"host_organization_lineage_names":["Royal Prince Alfred Hospital"],"type":"repository"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5035502","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":["National Institutes of Health"],"type":"repository"},"license":null,"version":"publishedVersion","is_accepted":true,"is_published":true}],"best_oa_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-016-0097-6","pdf_url":"https://jbiomedsem.biomedcentral.com/track/pdf/10.1186/s13326-016-0097-6","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310320256"],"host_organization_lineage_names":["Springer Nature","BioMed Central"],"type":"journal"},"license":"cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.36},{"id":"https://metadata.un.org/sdg/12","display_name":"Responsible consumption and production","score":0.35},{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.19},{"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure","score":0.12}],"grants":[{"funder":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation","award_id":"0753144"},{"funder":"https://openalex.org/F4320306202","funder_display_name":"Gordon and Betty Moore Foundation","award_id":"GBMF4491"},{"funder":"https://openalex.org/F4320332359","funder_display_name":"Office of Science","award_id":"DE-AC02-05CH11231"},{"funder":"https://openalex.org/F4320334678","funder_display_name":"European Research Council","award_id":"294757"},{"funder":"https://openalex.org/F4320334960","funder_display_name":"Seventh Framework Programme","award_id":"287589"}],"referenced_works_count":56,"referenced_works":["https://openalex.org/W1545338289","https://openalex.org/W1788313271","https://openalex.org/W1844490078","https://openalex.org/W1967552950","https://openalex.org/W1970682724","https://openalex.org/W1985283768","https://openalex.org/W1989348205","https://openalex.org/W1992007465","https://openalex.org/W1999713271","https://openalex.org/W2007069767","https://openalex.org/W2012932054","https://openalex.org/W2018367936","https://openalex.org/W2029607925","https://openalex.org/W2031658644","https://openalex.org/W2040604047","https://openalex.org/W2043059799","https://openalex.org/W2045444051","https://openalex.org/W2047711914","https://openalex.org/W2049916132","https://openalex.org/W2053039860","https://openalex.org/W2077339871","https://openalex.org/W2079520182","https://openalex.org/W2096704019","https://openalex.org/W2097601813","https://openalex.org/W2097877306","https://openalex.org/W2109109653","https://openalex.org/W2111191870","https://openalex.org/W2113142309","https://openalex.org/W2113806686","https://openalex.org/W2114074735","https://openalex.org/W2114676910","https://openalex.org/W2115921802","https://openalex.org/W2116034137","https://openalex.org/W2119613819","https://openalex.org/W2121378751","https://openalex.org/W2124282646","https://openalex.org/W2128993230","https://openalex.org/W2129687578","https://openalex.org/W2130430745","https://openalex.org/W2136291980","https://openalex.org/W2146679517","https://openalex.org/W2146906779","https://openalex.org/W2150076366","https://openalex.org/W2150829627","https://openalex.org/W2155370454","https://openalex.org/W2159327312","https://openalex.org/W2160209604","https://openalex.org/W2162385209","https://openalex.org/W2168931046","https://openalex.org/W2178026535","https://openalex.org/W2200941093","https://openalex.org/W2254409636","https://openalex.org/W2275070382","https://openalex.org/W2302501749","https://openalex.org/W2922146544","https://openalex.org/W2952998058"],"related_works":["https://openalex.org/W1526301532","https://openalex.org/W101751036","https://openalex.org/W2187859559","https://openalex.org/W2382017123","https://openalex.org/W1582258607","https://openalex.org/W72173000","https://openalex.org/W4298842574","https://openalex.org/W2576783425","https://openalex.org/W1506177826","https://openalex.org/W26549824"],"ngrams_url":"https://api.openalex.org/works/W2521644033/ngrams","abstract_inverted_index":{"The":[0,24,232],"Environment":[1],"Ontology":[2,102],"(ENVO;":[3],"http://www.environmentontology.org/":[4],"),":[5],"first":[6],"described":[7],"in":[8,99,164,223,239,290,322],"2013,":[9,165],"is":[10,51,242],"a":[11,54],"resource":[12],"and":[13,36,42,58,73,93,105,126,132,152,169,174,195,202,219,230,261,265,274,281,298,312,317],"research":[14],"target":[15],"for":[16,48,181,208],"the":[17,29,32,46,75,100,123,148,203,237,302,306],"semantically":[18],"controlled":[19],"description":[20],"of":[21,31,56,150,176,189,212,236,305],"environmental":[22,34,37,49,191,199,313],"entities.":[23],"ontology's":[25],"initial":[26,66],"aim":[27],"was":[28],"representation":[30,304],"biomes,":[33],"features,":[35],"materials":[38],"pertinent":[39],"to":[40,53,77,89,109,118,143,161,198,217,300,319],"genomic":[41],"microbiome-related":[43],"investigations.":[44],"However,":[45],"need":[47],"semantics":[50],"common":[52],"multitude":[55],"fields,":[57],"ENVO's":[59,166],"use":[60],"has":[61,248],"steadily":[62],"grown":[63],"since":[64],"its":[65,79,162,177],"description.":[67],"We":[68,83,113],"have":[69,84,114,171,214],"thus":[70],"expanded,":[71],"enhanced,":[72],"generalised":[74],"ontology":[76,253],"support":[78],"increasingly":[80],"diverse":[81],"applications.":[82],"updated":[85],"our":[86,272],"development":[87],"suite":[88],"promote":[90],"expressivity,":[91],"consistency,":[92],"speed:":[94],"we":[95,139,283,294],"now":[96,186],"develop":[97],"ENVO":[98,121,185,213,247],"Web":[101],"Language":[103],"(OWL)":[104],"employ":[106],"templating":[107],"methods":[108],"accelerate":[110,289],"class":[111],"creation.":[112],"also":[115],"taken":[116],"steps":[117],"better":[119],"align":[120],"with":[122,134,271],"Open":[124],"Biological":[125],"Biomedical":[127],"Ontologies":[128],"(OBO)":[129],"Foundry":[130],"principles":[131],"interoperate":[133],"existing":[135,178],"OBO":[136],"ontologies.":[137],"Further,":[138],"applied":[140],"text-mining":[141],"approaches":[142],"extract":[144],"habitat":[145,156],"information":[146],"from":[147,309],"Encyclopedia":[149],"Life":[151],"automatically":[153],"create":[154],"experimental":[155],"classes":[157],"within":[158],"ENVO.":[159],"Relative":[160],"state":[163],"content,":[167],"scope,":[168],"implementation":[170],"been":[172,215,249],"enhanced":[173],"much":[175],"content":[179],"revised":[180],"improved":[182],"semantic":[183,303],"representation.":[184],"offers":[187],"representations":[188],"habitats,":[190],"processes,":[192],"anthropogenic":[193,262],"environments,":[194],"entities":[196],"relevant":[197],"health":[200],"initiatives":[201],"global":[204],"Sustainable":[205],"Development":[206],"Agenda":[207],"2030.":[209],"Several":[210],"branches":[211],"used":[216],"incubate":[218],"seed":[220],"new":[221],"ontologies":[222],"previously":[224],"unrepresented":[225],"domains":[226,257],"such":[227],"as":[228],"food":[229],"agronomy.":[231],"current":[233],"release":[234],"version":[235],"ontology,":[238],"OWL":[240],"format,":[241],"available":[243],"at":[244],"http://purl.obolibrary.org/obo/envo.owl":[245],".":[246],"shaped":[250],"into":[251],"an":[252],"which":[254],"bridges":[255],"multiple":[256],"including":[258],"biomedicine,":[259],"natural":[260],"ecology,":[263],"‘omics,":[264],"socioeconomic":[266],"development.":[267],"Through":[268],"continued":[269],"interactions":[270],"users":[273],"partners,":[275],"particularly":[276],"those":[277],"performing":[278],"data":[279],"archiving":[280],"sythesis,":[282],"anticipate":[284],"that":[285],"ENVO’s":[286],"growth":[287],"will":[288],"2017.":[291],"As":[292],"always,":[293],"invite":[295],"further":[296],"contributions":[297],"collaboration":[299],"advance":[301],"environment,":[307],"ranging":[308],"geographic":[310],"features":[311],"materials,":[314],"across":[315],"habitats":[316],"ecosystems,":[318],"everyday":[320],"objects":[321],"household":[323],"settings.":[324]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W2521644033","counts_by_year":[{"year":2023,"cited_by_count":24},{"year":2022,"cited_by_count":51},{"year":2021,"cited_by_count":17},{"year":2020,"cited_by_count":23},{"year":2019,"cited_by_count":16},{"year":2018,"cited_by_count":19},{"year":2017,"cited_by_count":15},{"year":2016,"cited_by_count":2},{"year":2013,"cited_by_count":1}],"updated_date":"2023-12-19T07:37:48.733285","created_date":"2016-09-30"}},"citation_counts":{"http://dx.doi.org/10.1186/2041-1480-4-43":248,"http://dx.doi.org/10.1186/s13326-016-0097-6":168},"total_citations":416,"keywords_from_contributors":["owl","semantic-web","obo","rdf","bioinformatics","phenotype","knowledge-graph","agriculture","biocuration","geneontology"],"project_url":"https://ost.ecosyste.ms/api/v1/projects/81476","html_url":"https://ost.ecosyste.ms/projects/81476"}