Decentralized Biomedical Ontology
type: Ontology
version IRI: debio.owl
description: A repository for the TSV-based, decentralized, community-curated curation of terms, properties, and relations that get turned into OBO, OWL, and OBO Graph JSON.
auto-generated-by: bio2obo:debio
date: 15:02:2024 17:43
has_obo_format_version: 1.2

definition
type: AnnotationProperty

locus group
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
id: debio:0000005
is metadata tag: true

monoisotopic mass
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi/monoisotopicmass
id: debio:0000016
is metadata tag: true

charge
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi/charge
id: debio:0000017
is metadata tag: true

formula
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi/formula
database_cross_reference: obo:fbbt#FORMULA
id: debio:0000018
is metadata tag: true

mass
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi/mass
id: debio:0000019
is metadata tag: true

InChI
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi/inchi
database_cross_reference: obo:fbbt#InChI
database_cross_reference: wikidata:P234
id: debio:0000020
is metadata tag: true

InChI Key
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi/inchikey
database_cross_reference: obo:fbbt#InChIKey
database_cross_reference: wikidata:P235
id: debio:0000021
is metadata tag: true

smiles
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi/smiles
database_cross_reference: obo:fbbt#SMILES
id: debio:0000022
is metadata tag: true

has taxonomy rank
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:ncbitaxon#has_rank
id: debio:0000023
is metadata tag: true

has species group
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:NCBITaxon#_species_group
id: debio:0000024
is metadata tag: true

IUPAC Name
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi#IUPAC_NAME
database_cross_reference: obo:fbbt#IUPAC_NAME
id: debio:0000026
is metadata tag: true

International Nonproprietary Name
type: AnnotationProperty
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi#INN
database_cross_reference: obo:fbbt#INN
id: debio:0000028
is metadata tag: true

has related symbol
type: AnnotationProperty
definition: This term is most applicable to terms appearing in mathematical equations (e.g., rate laws) and connects the base concept to a symbol that has been used to represent it in a synonym.
created by: orcid:0000-0003-4423-4370
id: debio:0000030
is metadata tag: true

has related LaTeX
type: AnnotationProperty
definition: This term is most applicable to terms appearing in mathematical equations (e.g., rate laws) and connects the base concept to a the latex representing the symbol that has been used to represent it in a synonym.
created by: orcid:0000-0003-4423-4370
id: debio:0000031
is metadata tag: true

constant has value
type: AnnotationProperty
definition: Connects an individual representing a physical constant to its numeric value
created by: orcid:0000-0003-4423-4370
id: debio:0000042
is metadata tag: true

constant has formula
type: AnnotationProperty
definition: Connects an individual representing a physical constant to its formula
created by: orcid:0000-0003-4423-4370
id: debio:0000043
is metadata tag: true

database_cross_reference
type: AnnotationProperty

has_obo_format_version
type: AnnotationProperty

has functional parent
type: ObjectProperty
definition: X has functional parent Y if X is a derivative (e.g., a salt) of Y. E.g., bepridil hydrochloride has functional parent bepridil
created by: orcid:0000-0003-4423-4370
database_cross_reference: RO:0000015
database_cross_reference: obo:chebi#has_functional_parent
id: debio:0000015

is conjugate base of
type: ObjectProperty
definition: X is conjugate base of Y typically means that X is a deprotonated form of Y
created by: orcid:0000-0003-4423-4370
database_cross_reference: RO:0018033
database_cross_reference: obo:chebi#is_conjugate_base_of
id: debio:0000010

is conjugate acid of
type: ObjectProperty
definition: X is conjugate acid of Y typically means that Y is a protonated form of X
created by: orcid:0000-0003-4423-4370
database_cross_reference: RO:0018034
database_cross_reference: obo:chebi#is_conjugate_acid_of
id: debio:0000011

is tautomer of
type: ObjectProperty
definition: X and Y are tautomers if they are different realizations of the resonance structure of the same molecule
created by: orcid:0000-0003-4423-4370
database_cross_reference: RO:0018036
database_cross_reference: obo:chebi#is_tautomer_of
id: debio:0000013

is enantiomer of
type: ObjectProperty
definition: X and Y are in an enantiomeric relationship if flipping all stereocenters of X results in Y
created by: orcid:0000-0003-4423-4370
database_cross_reference: RO:0018039
database_cross_reference: obo:chebi#is_enantiomer_of
id: debio:0000012

has parent hydride
type: ObjectProperty
definition: X has parent hydride Y if the substituents on X are replaced with hydrogens. E.g., SbCl3 has parent hydride SbH3
created by: orcid:0000-0003-4423-4370
database_cross_reference: RO:0018040
database_cross_reference: obo:chebi#has_parent_hydride
id: debio:0000014

gene product is a member of
type: ObjectProperty
property chain axiom: RO_0002205
property chain axiom: RO_0002350
created by: orcid:0000-0003-4423-4370
id: debio:0000001

has mature miRNA
type: ObjectProperty
created by: orcid:0000-0003-4423-4370
id: debio:0000002

species specific
type: ObjectProperty
definition: X speciesSpecific Y means that Y is a general phenomena, like a pathway, and X is the version that appears in a species. X should state which species with RO:0002162 (in taxon)
created by: orcid:0000-0003-4423-4370
id: debio:0000003

Antibody has target
type: ObjectProperty
created by: orcid:0000-0003-4423-4370
id: debio:0000004

has salt
type: ObjectProperty
created by: orcid:0000-0003-4423-4370
id: debio:0000006

has left-to-right reaction
type: ObjectProperty
definition: X ltr Y means reaction X of undetermined direction has a left-to-right reaction Y. Relevant for Rhea.
created by: orcid:0000-0003-4423-4370
id: debio:0000007

has right-to-left reaction
type: ObjectProperty
definition: X rtl Y means reaction X of undetermined direction has a right-to-left reaction Y. Relevant for Rhea.
created by: orcid:0000-0003-4423-4370
id: debio:0000008

has bi-directional reaction
type: ObjectProperty
definition: X bi Y means reaction X of undetermined direction has a bidirectional reaction Y. Relevant for Rhea.
created by: orcid:0000-0003-4423-4370
id: debio:0000009

has origin
type: ObjectProperty
definition: Related to sequences
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:so#has_origin
id: debio:0000025

is substituent group from
type: ObjectProperty
definition: connects a group to its chemical entity (e.g., carboyxylic acid group to acetate)
created by: orcid:0000-0003-4423-4370
database_cross_reference: obo:chebi#is_substituent_group_from
id: debio:0000027

has citation
type: ObjectProperty
definition: connects any entity to a document (e.g., with a pubmed, doi, pmc, or arxiv identifier)
created by: orcid:0000-0003-4423-4370
id: debio:0000029

causes side effect
type: ObjectProperty
definition: connects any entity a side effect that it causes. For example, VO:0000112 (Tripedia) induces the side effect HP:0002013 (Vomiting)
created by: orcid:0000-0003-4423-4370
id: debio:0000032

pathogen has host
type: ObjectProperty
domain: NCBITaxon 1
range: NCBITaxon 1
definition: connects a pathogen (NCBITaxon) to a host (NCBITaxon)
created by: orcid:0000-0003-4423-4370
id: debio:0000033

vaccine has gene engineering
type: ObjectProperty
domain: VO_0000001
definition: connects a vaccine (VO) to a gene that has been engineered. Most applicable to OMVs, Nanosponges, and nanolipoparticles (NLP).
created by: orcid:0000-0003-4423-4370
id: debio:0000034

has intervention
type: ObjectProperty
definition: connects a clinical trial to an intervention it investigates
created by: orcid:0000-0003-4423-4370
id: debio:0000035

has condition
type: ObjectProperty
definition: connects a clinical trial to a condition it investigates
created by: orcid:0000-0003-4423-4370
id: debio:0000036

has platform
type: ObjectProperty
domain: VO_0000001
definition: connects a vaccine to its platform
created by: orcid:0000-0003-4423-4370
id: debio:0000037

mentioned in
type: ObjectProperty
definition: connects any entity to an article in which it's mentioned, e.g., extracted from NER
created by: orcid:0000-0003-4423-4370
id: debio:0000038

annotated with
type: ObjectProperty
definition: connects an article to a term it was annotated with (i.e. pubmed annotated with MeSH term)
created by: orcid:0000-0003-4423-4370
id: debio:0000039

related trial
type: ObjectProperty
definition: connects a related trial registered in a different registry
created by: orcid:0000-0003-4423-4370
id: debio:0000040

prevents infection
type: ObjectProperty
domain: VO_0000001
range: DOID 4
definition: Sibling relationship to vo:0001011 (immunizes against disease)
created by: orcid:0000-0003-4423-4370
id: debio:0000041

pathogen defines vaccine class
type: ObjectProperty
definition: A relationship where the domain is a taxon and the range is a vaccine family. E.g., Severe acute respiratory syndrome coronavirus 2 (ncbitaxon:2697049) is the pathogen that defines vaccine class COVID-19 vaccine (VO:0004908). Sort of an inverse of VO:0003355, but more specific
created by: orcid:0000-0003-4423-4370
id: debio:0000044

vector vaccine uses pathogen as vector
type: ObjectProperty
definition: connects a vaccine platform that is a vector vaccine to a pathogen that it uses as a vector
created by: orcid:0000-0003-4423-4370
id: debio:0000045

search results in
type: ObjectProperty
definition: connects any entity to an article that a search over the entity label or its synonyms produces
created by: orcid:0000-0001-9439-5346
id: debio:0000046

reaction enabled by molecular function
type: ObjectProperty
range: GO_0003674
definition: connects a reaction (e.g., from Rhea) to a molecular function (e.g., from GO) that corresponds
created by: orcid:0000-0003-4423-4370
id: debio:0000047

trial occurred in country
type: ObjectProperty
definition: connects a trial (e.g., from ClinicalTrials.gov) to a country (e.g., from GeoNames) based on where the trial took place
created by: orcid:0000-0003-4423-4370
id: debio:0000048

has active license from
type: ObjectProperty
definition: connects a vaccine (e.g., from VO) to a country or organization where it has an active license through standard approval
created by: orcid:0000-0003-4423-4370
id: debio:0000049

has active EUA license from
type: ObjectProperty
definition: connects a vaccine (e.g., from VO) to a country or organization where it has an active license through emergency use authorization (EUA)
created by: orcid:0000-0003-4423-4370
id: debio:0000050