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AOP Wiki Data Model with EMOD

This is a LinkML schema for the AOP-Wiki data model, extended with EMOD concepts.

URI: http://example.org/aopwiki-emod

Name: aopwiki-emod

Classes

Class Description
Aop
AopEvent
AopLifeStage
AopLog
AopRelationship
AopSex
AopStressor
AopTaxon
Assay
AssayBioTargetFamily
AssignedLicense
BatchImport
BiologicalAction
BiologicalObject
BiologicalOrganization
BiologicalProcess
BioTargetFamily
CellTerm
Chemical
ChemicalSynonym
Citation
CitationBioTargetFamily
CitationRelationship
ConfidenceLevel
Directness
Event
EventBioTargetFamily
EventComponent
EventLifeStage
EventLog
EventSex
EventTaxon
Evidence
ExperimentType
Handbook
HarmonizedAop
HarmonizedEvent
License
LifeStageTerm
Observation
ObservationCitation
OecdStatus
OrganTerm
Profile
Relationship
RelationshipLifeStage
RelationshipLog
RelationshipSex
RelationshipTaxon
SexTerm
Stressor
StressorChemical
StressorLog
TaxonTerm
UrlLink
User

Slots

Slot Description
abstract
active_version
affiliation
aop_id
aops
applicability_of_the_aop
assay_id
assays
assigned_license_id
authors
background
batch_code
batch_import_id
bio_target_families
biological_action_id
biological_object_id
biological_organization_id The level of biological organization at which the Key Event occurs (e
biological_plausibility
biological_process_id
biological_target_family_id
casrn
cell_term_id The cell type in which the Key Event takes place
changed_at Timestamp of when the record was last changed
characterization_of_exposure
chemical_description
chemical_id
citation_id
citations
coached_aops
coaches
completion_score
confidence_id
contributed_aops
contributor_id
contributors
corresponding_author_id
country
created_at Timestamp of when the record was created
definition A description of the biological state being observed or measured, the biologi...
description
detection_technology
development_strategy
directness_id
doi
downstream_event_id
downstream_observation_id
dsstox_chemical_id
dsstox_substance_id
email
empirical_support
essentiality_id
event_components
event_id
events
evidence_collection_strategy
evidence_for_chemical_initiation Documentation of how specific prototypical stressors (generally chemicals) ca...
evidence_text
examples_using_ao Examples illustrating the regulatory significance of this Key Event when it s...
exp_type
experimental_design
external_assay_id
first_name
forum_links
github_handle
graphical_representation_image_uid
handbook_id
harmonized_event_id
harmonized_label
harmonized_label_key
has_method_text Indicates whether method text has been provided for this Key Event
how_it_works The mechanistic basis explaining how perturbation of this Key Event leads to ...
id
inchi
inchi_key
indigo_inchi_key
integration_score Calculated metric for integration and priority assessment of the Key Event
internal_notes
is_priority
jchem_inchi_key
journal
key_event_essentiality
known_loops
known_modulating_factors
label
last_name
legacy
license_id
life_stage_term_id
life_stages
link_source
logo_uid
mailing_address
mapping_status
mean_event_score
mean_ker_score
measured_or_detected A description of the type(s) of measurements that can be employed to evaluate...
modulating_factors
name
ncbi_id
new_aop_id
notes
objects
observation_id
observations
oecd_project
oecd_status_id
official_name
optional_considerations
orcid
organ_term_id The organ or tissue in which the Key Event takes place
other
overall_assessment
overall_assessment_file_uid
pdf_copy_uid
pdf_only
phenotype
preferred_name
process_is_phenotype
processes
prototypical_stressor
pubchem_compound_id
pubchem_substance_id
quantitative_considerations
quantitative_understanding
quantitative_understanding_id
raw_mapping_value
references
relationship_id
relationships
release_date
release_notes
release_notes_doc_uid
released
response_relationship
row_order
saaop_status_id
scientific_term
sequence
sex_term_id
sexes
short_code
short_name
sort
source
source_aop_id
source_event_id
source_event_id_text
source_event_label
source_id
stressor_id
supporting_tax_evidence Evidence describing the taxonomic applicability of the Key Event, using Latin...
tag
taxon_evidence
taxon_term_id
taxon_terms
taxons
term
term_class
time_scale
time_zone
title
type
uncertainties
updated_at Timestamp of when the record was last updated
upstream_event_id
upstream_observation_id
url
url_links
user_defined_ao
user_defined_mie
user_id
user_term
username
version
weight_of_evidence
weight_of_evidence_summary
year

Enumerations

Enumeration Description
BiologicalActionEnum
BiologicalObjectSourceEnum
BiologicalOrganizationEnum
BiologicalProcessSourceEnum
ConfidenceLevelEnum
DirectnessEnum
LifeStageTermEnum
OecdStatusEnum
SexTermEnum
TaxonTermClassEnum

Types

Type Description
Boolean A binary (true or false) value
Curie a compact URI
Date a date (year, month and day) in an idealized calendar
DateOrDatetime Either a date or a datetime
Datetime The combination of a date and time
Decimal A real number with arbitrary precision that conforms to the xsd:decimal speci...
Double A real number that conforms to the xsd:double specification
Float A real number that conforms to the xsd:float specification
Integer An integer
Jsonpath A string encoding a JSON Path
Jsonpointer A string encoding a JSON Pointer
Ncname Prefix part of CURIE
Nodeidentifier A URI, CURIE or BNODE that represents a node in a model
Objectidentifier A URI or CURIE that represents an object in the model
Sparqlpath A string encoding a SPARQL Property Path
String A character string
Time A time object represents a (local) time of day, independent of any particular...
Uri a complete URI
Uriorcurie a URI or a CURIE

Subsets

Subset Description