format-version: 1.2
date: 15:02:2024 17:43
auto-generated-by: bio2obo:debio
data-version: 0.1.2-dev
idspace: RO http://purl.obolibrary.org/obo/RO_
idspace: debio https://biopragmatics.github.io/debio/
idspace: obo http://purl.obolibrary.org/obo/
idspace: orcid https://orcid.org/
ontology: debio
property_value: http://purl.org/dc/elements/1.1/title "Decentralized Biomedical Ontology" xsd:string
property_value: http://purl.org/dc/elements/1.1/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." xsd:string

[Typedef]
id: debio:0000001
name: gene product is a member of
created_by: orcid:0000-0003-4423-4370
holds_over_chain: RO:0002205 RO:0002350 ! has gene product / member of

[Typedef]
id: debio:0000002
name: has mature miRNA
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000003
name: species specific
def: "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

[Typedef]
id: debio:0000004
name: Antibody has target
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000005
name: locus group
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000006
name: has salt
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000007
name: has left-to-right reaction
def: "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

[Typedef]
id: debio:0000008
name: has right-to-left reaction
def: "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

[Typedef]
id: debio:0000009
name: has bi-directional reaction
def: "X bi Y means reaction X of undetermined direction has a bidirectional reaction Y. Relevant for Rhea."
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000010
name: is conjugate base of
def: "X is conjugate base of Y typically means that X is a deprotonated form of Y"
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi#is_conjugate_base_of
xref: RO:0018033

[Typedef]
id: debio:0000011
name: is conjugate acid of
def: "X is conjugate acid of Y typically means that Y is a protonated form of X"
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi#is_conjugate_acid_of
xref: RO:0018034

[Typedef]
id: debio:0000012
name: is enantiomer of
def: "X and Y are in an enantiomeric relationship if flipping all stereocenters of X results in Y"
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi#is_enantiomer_of
xref: RO:0018039

[Typedef]
id: debio:0000013
name: is tautomer of
def: "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
xref: obo:chebi#is_tautomer_of
xref: RO:0018036

[Typedef]
id: debio:0000014
name: has parent hydride
def: "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
xref: obo:chebi#has_parent_hydride
xref: RO:0018040

[Typedef]
id: debio:0000015
name: has functional parent
def: "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
xref: obo:chebi#has_functional_parent
xref: RO:0000015

[Typedef]
id: debio:0000016
name: monoisotopic mass
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi/monoisotopicmass

[Typedef]
id: debio:0000017
name: charge
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi/charge

[Typedef]
id: debio:0000018
name: formula
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi/formula
xref: obo:fbbt#FORMULA

[Typedef]
id: debio:0000019
name: mass
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi/mass

[Typedef]
id: debio:0000020
name: InChI
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi/inchi
xref: obo:fbbt#InChI
xref: wikidata:P234

[Typedef]
id: debio:0000021
name: InChI Key
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi/inchikey
xref: obo:fbbt#InChIKey
xref: wikidata:P235

[Typedef]
id: debio:0000022
name: smiles
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi/smiles
xref: obo:fbbt#SMILES

[Typedef]
id: debio:0000023
name: has taxonomy rank
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:ncbitaxon#has_rank

[Typedef]
id: debio:0000024
name: has species group
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:NCBITaxon#_species_group

[Typedef]
id: debio:0000025
name: has origin
def: "Related to sequences"
created_by: orcid:0000-0003-4423-4370
xref: obo:so#has_origin

[Typedef]
id: debio:0000026
name: IUPAC Name
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi#IUPAC_NAME
xref: obo:fbbt#IUPAC_NAME

[Typedef]
id: debio:0000027
name: is substituent group from
def: "connects a group to its chemical entity (e.g., carboyxylic acid group to acetate)"
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi#is_substituent_group_from

[Typedef]
id: debio:0000028
name: International Nonproprietary Name
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370
xref: obo:chebi#INN
xref: obo:fbbt#INN

[Typedef]
id: debio:0000029
name: has citation
def: "connects any entity to a document (e.g., with a pubmed, doi, pmc, or arxiv identifier)"
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000030
name: has related symbol
def: "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."
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000031
name: has related LaTeX
def: "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."
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000032
name: causes side effect
def: "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

[Typedef]
id: debio:0000033
name: pathogen has host
def: "connects a pathogen (NCBITaxon) to a host (NCBITaxon)"
created_by: orcid:0000-0003-4423-4370
domain: NCBITaxon:1
range: NCBITaxon:1

[Typedef]
id: debio:0000034
name: vaccine has gene engineering
def: "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
domain: VO:0000001

[Typedef]
id: debio:0000035
name: has intervention
def: "connects a clinical trial to an intervention it investigates"
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000036
name: has condition
def: "connects a clinical trial to a condition it investigates"
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000037
name: has platform
def: "connects a vaccine to its platform"
created_by: orcid:0000-0003-4423-4370
domain: VO:0000001

[Typedef]
id: debio:0000038
name: mentioned in
def: "connects any entity to an article in which it's mentioned, e.g., extracted from NER"
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000039
name: annotated with
def: "connects an article to a term it was annotated with (i.e. pubmed annotated with MeSH term)"
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000040
name: related trial
def: "connects a related trial registered in a different registry"
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000041
name: prevents infection
def: "Sibling relationship to vo:0001011 (immunizes against disease)"
created_by: orcid:0000-0003-4423-4370
domain: VO:0000001
range: DOID:4

[Typedef]
id: debio:0000042
name: constant has value
def: "Connects an individual representing a physical constant to its numeric value"
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000043
name: constant has formula
def: "Connects an individual representing a physical constant to its formula"
is_metadata_tag: true
created_by: orcid:0000-0003-4423-4370

[Typedef]
id: debio:0000044
name: pathogen defines vaccine class
def: "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

[Typedef]
id: debio:0000045
name: vector vaccine uses pathogen as vector
def: "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

[Typedef]
id: debio:0000046
name: search results in
def: "connects any entity to an article that a search over the entity label or its synonyms produces"
created_by: orcid:0000-0001-9439-5346

[Typedef]
id: debio:0000047
name: reaction enabled by molecular function
def: "connects a reaction (e.g., from Rhea) to a molecular function (e.g., from GO) that corresponds"
created_by: orcid:0000-0003-4423-4370
range: GO:0003674

[Typedef]
id: debio:0000048
name: trial occurred in country
def: "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

[Typedef]
id: debio:0000049
name: has active license from
def: "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

[Typedef]
id: debio:0000050
name: has active EUA license from
def: "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