NFDI4Chem
A collection of ontologies relevant within the NFDI4Chem project that is mostly based on the overview paper Ontologies4Chem: the landscape of ontologies in chemistry.
NFDI4Chem deploys a custom instance of the Ontology Lookup Service (OLS), called NFDI4Chem Terminology Services (TS), that provides the ontologies in this list. This list contains ontologies that cover various domains of chemistry (e.g. ChEBI, CHMO, and RXNO), those that are dependencies of these chemistry specific ontologies (e.g. BFO, RO, IAO, and OBI) as well as those ontologies, which where indexed in the NFDI4Chem TS for interoperability research purposes (e.g. PROV-O, SOSA, and OBOE).
Maintainers
Suggest a new addition to this collection here.
Ontologies
The following table comes from Semantic Farm collection
0000014, which is automatically
synced from the TIB Terminology Service collection
nfdi4chem.
| Prefix | Name | License | Comment |
|---|---|---|---|
afo | Allotrope Merged Ontology Suite | Custom | |
BFO | Basic Formal Ontology | CC-BY-4.0 | |
BTO | BRENDA Tissue Ontology | CC-BY-4.0 | |
CHEBI | Chemical Entities of Biological Interest | CC-BY-4.0 | Used in YMDB, HMDB, PubChem, MassBank, KNApSAcK, UM-BBD, GMD, SMID-DB |
CHEMINF | Chemical Information Ontology | CC0-1.0 | |
ChEMROF | Chemical Entity Materials and Reactions Ontological Framework | CC0-1.0 | |
CHIRO | ChEBI Integrated Role Ontology | CC0-1.0 | |
CHMO | Chemical Methods Ontology | CC-BY-4.0 | |
DUO | Data Use Ontology | CC-BY-4.0 | |
edam | EDAM Ontology | CC-BY-SA-4.0 | |
EFO | Experimental Factor Ontology | Apache-2.0 | |
enm | eNanoMapper ontology | CC-BY-3.0 | |
ENVO | Environment Ontology | CC0-1.0 | |
fair | FAIR Vocabulary | CC-BY-4.0 | |
FIX | Physico-chemical methods and properties | ||
gainesville.core | Gainesville Core Ontology | CC-BY-3.0 | |
IAO | Information Artifact Ontology | CC-BY-4.0 | |
MOD | Protein modification | CC-BY-4.0 | |
MOP | Molecular Process Ontology | CC-BY-4.0 | |
MS | Mass spectrometry ontology | CC-BY-3.0 | |
NCIT | NCI Thesaurus | CC-BY-4.0 | |
NMR | NMR-instrument specific component of metabolomics investigations | CC-PDM-1.0 | |
OBI | Ontology for Biomedical Investigations | CC-BY-4.0 | |
oboe | The Extensible Observation Ontology | CC-BY-3.0 | |
oboe.standard | OBOE Standard | ||
om | Ontology of units of Measure | CC-BY-4.0 | |
ontorxn | OntoRXN | CC-BY-4.0 | |
PATO | Phenotype And Trait Ontology | CC-BY-3.0 | |
PROCO | Process Chemistry Ontology | CC-BY-4.0 | |
prov | PROV Namespace | W3C-20150513 | |
reproduceme | REPRODUCE-ME Ontology | CC-BY-NC-SA-2.0 | |
REX | Physico-chemical process | ||
RO | Relation Ontology | CC0-1.0 | |
RXNO | Name Reaction Ontology | CC-BY-4.0 | |
SEPIO | Scientific Evidence and Provenance Information Ontology | CC-BY-3.0 | |
SIO | Semanticscience Integrated Ontology | CC-BY-4.0 | |
sosa | Sensor, Observation, Sample, and Actuator Ontology | Custom | |
ssn | Semantic Sensor Network Ontology | Custom | |
ssn.system | System capabilities, operating ranges, and survival ranges ontology | Custom | |
SWO | Software Ontology | CC-BY-4.0 | |
time | Time Ontology in OWL | CC-BY-4.0 | |
UO | Units of measurement ontology | CC-BY-3.0 | |
vibso | Vibrational Spectroscopy Ontology | CC-BY-4.0 | |
voc4cat | A vocabulary for the catalysis disciplines | CC0-1.0 | |
worldavatar.compchem | Computational Chemistry Ontology | MIT | |
worldavatar.kin | Ontology for Chemical Kinetic Reaction Mechanisms | MIT | |
worldavatar.os | OntoSpecies - Chemical Species Ontology for Data Integration and Knowledge Discovery | MIT |
Colophon
This page was automatically generated on 2026-06-10 using Semantic Farm (v0.13.59) by running the following commands:
$ git clone https://github.com/nfdi-de/nfdi-sections
$ cd nfdi-sections
$ uv run scripts/update_collections.py
$ git commit -am "Update WG Onto collections"
$ git push