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OBO Foundry

The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. To achieve this, OBO Foundry participants follow and contribute to the development of an evolving set of principles including open use, collaborative development, non-overlapping and strictly-scoped content, and common syntax and relations, based on ontology models that work well, such as the Operations Committee with Editorial, Technical and Outreach working groups.

GitHub: https://github.com/topics/obofoundry
Wikipedia: https://en.wikipedia.org/wiki/OBO_Foundry
Repo: https://github.com/OBOFoundry
Released: 2003
Related Topics: web-ontology-language, owl, owl-ontology,
Aliases: obo,
Last updated: 2024-12-13 00:21:10 UTC
JSON Representation

https://github.com/monarch-initiative/ontogpt

LLM-based ontological extraction tools, including SPIRES

ai chat-gpt data-modeling gpt-3 information-extraction language-models large-language-models linkml llm monarchinitiative named-entity-recognition ner nlp oaklib obofoundry relation-extraction

Last synced: 04 Nov 2024

https://github.com/BFO-ontology/BFO

BFO repository including source code and latest documents

obofoundry

Last synced: 03 Nov 2024

https://github.com/althonos/pronto

A Python frontend to (Open Biomedical) Ontologies.

bioinformatics obo obo-graphs obofoundry ontology owl parser python semantic-web

Last synced: 16 Dec 2024

https://github.com/FoodOntology/foodon

The core repository for the FOODON food ontology project. This holds the key classes of the ontology; larger files and the results of text-mining projects will be stored in other repos.

agriculture food obofoundry ontology owl

Last synced: 04 Nov 2024

https://biolink.github.io/biolink-model/

Schema and generated objects for biolink data model and upper ontology

biolink datamodel gene-ontology json-api knowledge-graphs linkml monarchinitiative ncats ncats-translator neo4j obofoundry owl rdf specification standard yaml

Last synced: 13 Nov 2024

https://github.com/biolink/biolink-model

Schema and generated objects for biolink data model and upper ontology

biolink datamodel gene-ontology json-api knowledge-graphs linkml monarchinitiative ncats ncats-translator neo4j obofoundry owl rdf specification standard yaml

Last synced: 20 Dec 2024

https://github.com/obophenotype/cell-ontology

An ontology of cell types

anatomy anatomy-ontology cell-ontology cell-types genomics metazoa monarchinitiative obofoundry ontology owl semantic-web transcriptomics

Last synced: 23 Oct 2024

https://github.com/mapping-commons/sssom

Simple Standard for Sharing Ontology Mappings

linkml mapping mapping-commons mapping-standards mapping-tools metadata-elements obofoundry owl sssom tsv

Last synced: 23 Oct 2024

https://github.com/EnvironmentOntology/envo

A community-driven ontology for the representation of environments

data-management data-science earth-science ecoinformatics ecology environment esip obofoundry ontology planetary-science semantics sustainable-development-goals

Last synced: 04 Nov 2024

https://github.com/biolink/ontobio

python library for working with ontologies and ontology associations

bioinformatics gene-ontology graph obo obofoundry ontology ontology-tools python rdf semantic-web sparql

Last synced: 21 Dec 2024

https://github.com/EBISPOT/OLS

Ontology Lookup Service from SPOT at EBI

java neo4j obofoundry owl owl-api

Last synced: 16 Nov 2024

https://github.com/obi-ontology/obi

The Ontology for Biomedical Investigations

bioinformatics obo obofoundry ontology owl semantic-web

Last synced: 23 Oct 2024

https://github.com/information-artifact-ontology/IAO

information artifact ontology

obofoundry ontologies

Last synced: 03 Nov 2024

https://github.com/biopragmatics/pyobo

📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures

bioinformatics biopragmatics bioregistry obo obofoundry ontologies

Last synced: 17 Dec 2024

https://github.com/pato-ontology/pato

PATO - the Phenotype And Trait Ontology

obo obofoundry ontology phenotypes qualities quantities semantic-web standards trait-ontology units

Last synced: 04 Nov 2024

https://github.com/jannahastings/emotion-ontology

Ontology for emotions and affective phenomena

affective-sciences emotion-ontology obofoundry

Last synced: 18 Dec 2024

https://github.com/evidenceontology/evidenceontology

Evidence & Conclusion Ontology development site: Use ISSUES to request terms. See WIKI for how to request terms. See README for how to cite ECO. Visit our website for more project info.

annotation evidence obo obofoundry ontology owl

Last synced: 23 Oct 2024

https://github.com/rsc-ontologies/rxno

Name Reaction Ontology

molecular-processes obo obofoundry owl reaction-ontology

Last synced: 17 Nov 2024

https://github.com/vemonet/shapes-of-you

💠 An index for linked open data & standard knowledge descriptions (ontologies, vocabularies, shapes, queries, mappings)

git grlc index mappings obofoundry ontologies owl registry shacl shacl-shapes shapes shex skos sparql

Last synced: 11 Nov 2024

https://github.com/allysonlister/swo

The Software Ontology (SWO) is a resource for describing software tools, their types, tasks, versions, licences, provenance and associated data.

obofoundry

Last synced: 04 Nov 2024

https://github.com/ISA-tools/stato

This is the development repository for the STATistics Ontology (STATO). For more information and demonstration on the ontology content, please visit its website:

obofoundry ontology owl statistics

Last synced: 23 Oct 2024

https://github.com/cmungall/semantic-llama

A knowledge extraction tool that uses a large language model to extract semantic information from text

ai knowledge-extraction language-models linkml oaklib obofoundry

Last synced: 22 Oct 2024

https://github.com/jannahastings/mental-functioning-ontology

Ontology for all aspects of human mental functioning

mentalfunctioning obofoundry ontologies ontology

Last synced: 10 Dec 2024

https://github.com/INCATools/obographviz

Customizable translation of OBO graphs to dot for visualization using graphviz and other tools

graph-visualization graphviz javascript json node obofoundry obographs

Last synced: 23 Oct 2024

https://github.com/CIDO-ontology/cido

CIDO: Coronavirus Infectious Disease Ontology

coronavirus covid-19 infectious-diseases mers-cov obofoundry ontology sars-cov sars-cov-2

Last synced: 23 Oct 2024

https://github.com/BiodiversityOntologies/bco

Biological Collections Ontology

obofoundry

Last synced: 23 Oct 2024

https://github.com/biopragmatics/curies

🐸 Idiomatic conversion between URIs and compact URIs (CURIEs) in Python

curies obofoundry semantic-web uris

Last synced: 17 Dec 2024

https://github.com/OBOFoundry/OBO-Dashboard

Summary Dashboard for Open Biological and Biomedical Ontologies

obofoundry

Last synced: 23 Oct 2024

https://github.com/monarch-initiative/GENO-ontology

Repository for representing genotypes and their association with phenotypes

monarchinitiative obofoundry ontology

Last synced: 23 Oct 2024

https://github.com/OGMS/ogms

Automatically exported from code.google.com/p/ogms

obofoundry

Last synced: 23 Oct 2024

https://github.com/BFO-ontology/BFO2

BFO 2 classes with relations commonly used by OBO Foundry ontologies defined in RO core

obofoundry

Last synced: 23 Oct 2024

https://github.com/semanticchemistry/semanticchemistry

Chemical Information Ontology

chemical-information cheminformatics chemistry obofoundry ontology

Last synced: 23 Oct 2024

https://github.com/PopulationAndCommunityOntology/pco

An ontology about groups of interacting organisms such as populations and communities

obofoundry

Last synced: 23 Oct 2024

https://github.com/rsc-ontologies/rsc-cmo

Chemical Methods Ontology

chemical-methods-ontology chromatography obo obofoundry ontology owl

Last synced: 17 Nov 2024

https://github.com/ClinicalTrialOntology/CTO

CTO: Core Ontology of Clinical Trials

clinical-trials obofoundry ontology

Last synced: 23 Oct 2024

https://github.com/cmungall/sweet-obo-alignment

Alignment between ESIP SWEET and Open Bio Ontologies

environment environment-variables mapping obo obofoundry ontology sssom sweet

Last synced: 11 Dec 2024

https://github.com/evoinfo/miapa

Minimum Information About a Phylogenetic Analysis (MIAPA) vocabularies and tools

information-exchange minimum-information obofoundry phylogenetics standard

Last synced: 23 Oct 2024

https://github.com/obophenotype/zebrafish-phenotype-ontology

A vocabulary for describing Zebrafish Phenotypes

anatomy anatomy-ontology developmental-stages obofoundry ontology zebrafish

Last synced: 23 Oct 2024

https://github.com/linkml/prefixmaps

Semantic prefix map registry

bioregistry linkml obofoundry prefixmaps

Last synced: 10 Nov 2024

https://github.com/cthoyt/curies4j

🐸 Idiomatic conversion between URIs and compact URIs (CURIEs)

curies java obofoundry semantic-web uris

Last synced: 13 Oct 2024

https://github.com/linkml/sparqlfun

sparql templates for linkml (alpha)

linked-data linkml obofoundry ontobee ontologies rdflib sparql sparql-templates ubergraph

Last synced: 10 Nov 2024

https://github.com/EBI-BioModels/SBO

The Systems Biology Ontology (SBO) is a set of controlled, relational vocabularies of terms commonly used in Systems Biology, and in particular in computational modeling.

biosimulators computational-biology mathematical-modeling numerical-simulation obofoundry ontology sbml systems-biology

Last synced: 23 Oct 2024

https://github.com/IHCC-cohorts/GECKO

Genomics Cohorts Knowledge Ontology

cohort genomics obofoundry ontology

Last synced: 23 Oct 2024

https://github.com/biopragmatics/obo-db-ingest

🗄️ Conversion of biomedical nomenclatures like HGNC to OBO

biocuration obo obofoundry obographs obographviz ontologies owl rdf

Last synced: 26 Nov 2024

https://github.com/infectious-disease-ontology/infectious-disease-ontology

The source code of Infectious Disease Ontology (IDO)

obofoundry

Last synced: 23 Oct 2024

https://github.com/NuriaQueralt/covid19-epidemiology-ontology

Epidemiology and monitoring ontology for COVID-19

axiom-patterns biohackeu20 covid-19 epidemiology obo obofoundry ontology owl

Last synced: 23 Oct 2024

https://github.com/cyang0128/Nutritional-epidemiologic-ontologies

machine-readable nutritional epidemiologic (meta-)data

data-sharing dietary-intake epidemiology nutrition obofoundry ontology ontology-search strobe-nut

Last synced: 23 Oct 2024

https://github.com/biopragmatics/oquat

🎬 Ontology Quality Assesment Toolkit

obofoundry

Last synced: 26 Nov 2024

https://github.com/cthoyt/ontoportal-client

🎡 Unified access to OntoPortal instances like BioPortal, AgroPortal, and EcoPortal

agroportal bioportal cookiecutter-snekpack ecoportal obo obofoundry ontologies ontoportal python

Last synced: 13 Oct 2024

https://github.com/OmniSearch/omit

Ontology for MicroRNA Target

obo-foundry obofoundry

Last synced: 23 Oct 2024

https://github.com/hymao/hao

Hymenoptera Anatomy Ontology

hymenoptera obofoundry

Last synced: 02 Dec 2024

https://github.com/BRENDA-Enzymes/BTO

BRENDA Tissue Ontology

brenda brenda-tissue-ontology bto enzyme-data enzyme-sources obofoundry

Last synced: 23 Oct 2024

https://github.com/obophenotype/c-elegans-development-ontology

C. elegans Development Ontology

caenorhabditis-elegans development nematodes obofoundry ontology wormbase

Last synced: 23 Oct 2024

https://github.com/ZFIN/zebrafish-experimental-conditions-ontology

obofoundry

Last synced: 23 Oct 2024

https://github.com/SVA-SE/HSO

Health Surveillance Ontology

obofoundry

Last synced: 23 Oct 2024

https://github.com/DiseaseOntology/DiseaseDriversOntology

Ontology for drivers and triggers of human diseases, built to classify ExO ontology exposure stressors. An application ontology. Built in collaboration with EnvO, ExO, ECTO and ChEBI.

disease obofoundry ontology

Last synced: 23 Oct 2024