The LUMC Clinical Ontology (LCO) provides an ontology for integration of health observational data collected in the LUMC hospital for patient monitoring and research.
16-06-2021
16-06-2021
free to use,share,modify. modify with attribution [http://creativecommons.org/licenses/by/4.0/].
LUMC Clinical Ontology (LCO)
1.0
hasVersion
A related resource that is a version, edition, or adaptation of the described resource.
has version
SIO_000001
A is related to B iff there is some relation between A and B.
is related to
hasScale
has scale
LABO_0000118
has minimal value
LABO_0000119
has maximal value
CMO_0001109
Any measurement of the degree to which the presentation of a disease state has caused pain or damage, established one or more lesions or infectious colonies, and/or taken over or interfered with the normal functioning of the body as a whole, or of one or more organs, tissues, cells or subcellular mechanisms of an organism.
disease severity measurement
NCIT_C164796
an identifier for a donor in a biobank.
donor registry identifier
NCIT_C25214
Systematic, objective appraisal of the significance, effectiveness, and impact of activities or condition according to specified objectives and criteria.
evaluation
NCIT_C25664
An ordered reference standard used to measure incremental changes.
scale
NCIT_C81265
A description of the technique for the appraisal of a subject or object.
evaluation method
OBI_1110087
a role which inheres in an organism or part thereof from which any part including cell, organ or tissue is removed with the intention that the donated part will be placed into another organism and/or cultured in vitro.
donor role
Standard
a reference point against which other things can be evaluated or compared.
standard
SIO_000000
every thing is an entity.
entity
SIO_000015
information content entity is an object that requires some background knowledge or procedure to correctly interpret.
information content entity
SIO_000614
an attribute is a characteristic of some entity.
attribute
SIO:000653
A version label is a label for a particular form or variation of an earlier or original type.
version label
SIO_000883
a subject role is the role of an individual that is the target of the study.
subject role
SIO_001023
a medical screening is a medical test or series used to detect or predict the presence of disease in individuals at risk for disease within a defined group, such as a population, family, or workforce
medical screening
SIO_001331
a diagnosis is the result of a medical investigation to identify a disorder from its signs and symptoms.
diagnosis
has agent
SIO_000642
is base for is a relation between a quality and the realizable entity that it is the basis for.
is base for
SIO_001024
A medical procedure is a procedure to identify, examine, alleviate or eliminate an undesirable biological disease or disorder.
medical procedure
a core relation that holds between a part and its whole.
BFO_0000050
part of
a measurement unit label is as a label that is part of a scalar measurement datum and denotes a unit of measure.
IAO_0000003
measurement unit label
a measurement datum is an information content entity that is a recording of the output of a measurement such as produced by a device.
measurement datum
IAO_0000109
a primitive, instance-level, relation obtaining between an information content entity and some portion of reality. Denotation is what happens when someone creates an information content entity E in order to specifically refer to something. The only relation between E and the thing is that E can be used to 'pick out' the thing. This relation connects those two together.
denotes
IAO_0000219
NCIT_C21541
healthcare facility
the buildings and organizations where healthcare services are provided, e.g. ward.
NCIT_C25164
date
the particular day, month and year an event has happened or will happen.
order
the act of requesting that a person, business, or organization do or supply something.
NCIT_C48906
a planned process with the objective to produce information about the material entity that is the evaluant, by physically examining it or its proxies.
OBI_0000070
assay
OBI_0000272
a plan specification which has sufficient level of detail and quantitative information to communicate it between investigation agents, so that different investigation agents will reliably be able to independently reproduce the process.
protocol
OBI_0000968
a material entity that is designed to perform a function in a scientific investigation, but is not a reagent.
device
RO_0001025
located in
a relation between two independent continuants, the target and the location, in which the target is entirely within the location.
starts during is a relation between a process and an information content entity that states a point or period of time when the process has to start. X starts_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (start(X) before_or_simultaneous_with end(Y)), e.g. the patient sampling starts during what is stated in the order done by the medical doctor.
RO_0002091
starts during
an identifier for a patient participating in the Beat-COVID study.
beat_covid_id
beat-covid identifier
clinical_id
an identifier for a patient in the clinical database.
clinical identifier
an identifier for a sample or set of samples.
sample identifier
record_id
an established standard to which the described resource conforms.
conforms to
conformsTo
date
a point or period of time associated with an event in the lifecycle of the resource.
date
an unambiguous reference to the resource within a given context.
identifier
identifier
a material entity is a physical entity that is spatially extended, exists as a whole at any point in time and has mass.
material entity
SIO_000004
SIO_000005
quality
a quality is an attribute that is intrinsically associated with its bearer (or its parts), but whose presence/absence and observed/measured value may vary.
SIO_000006
process
a process is an entity that is identifiable only through the unfolding of time, has temporal parts, and unless otherwise specified/predicted, cannot be identified from any instant of time in which it exists.
SIO_000008
has attribute is a relation that associates a entity with an attribute where an attribute is an intrinsic characteristic such as a quality, capability, disposition, function, or is an externally derived attribute determined from some descriptor (e.g. a quantity, position, label/identifier) either directly or indirectly through generalization of entities of the same type.
has attribute
SIO_000011
is attribute of
is attribute of is a relation that associates an attribute with an entity where an attribute is an intrinsic characteristic such as a quality, capability, disposition, function, or is an externally derived attribute determined from some descriptor (e.g. a quantity, position, label/identifier) either directly or indirectly through generalization of entities of the same type.
SIO_000016
a role is a realizable entity that describes behaviours, rights and obligations of an entity in some particular circumstance.
role
an identifier is a label that specifically refers to (identifies) an entity (instance/type).
identifier
SIO_000115
SIO_000132
has participant
has participant is a relation that describes the participation of the object in the (processual) subject.
has quality
has quality is a relation between an entity and the quality that it bears.
SIO_000217
has unit is a relation between a quantity and the unit it is a multiple of.
has unit
SIO_000221
has role
SIO_000228
has role is a relation between an entity and a role that it bears.
SIO_000229
has output is a relation between a process and an entity, where the entity is present at the end of the process.
has output
has input is a relation between a process and an entity, where the entity is present at the beginning of the process.
SIO_000230
has input
SIO_000291
has target is a relation between a process and an entity, where the entity is present at the beginning of the process and undergoes a change or transformation in the process.
has target
a relation between a informational entity and its actual value (numeric, date, text, etc).
has value
SIO_000300
realizable entity
a realizable entity is an attribute that is exhibited under some condition and is realized in some process.
SIO_000340
SIO_000356
the role of a patient is realized in medical examination.
is realized in
person
SIO_000498
a person is an object that has certain capacities or attributes constituting personhood.
refers to
refers to is a relation between one entity and the entity that it makes reference to.
SIO_000628
is identifier for
SIO_000672
a relation between an identifier and an entity.
institute is a society or organization having a object or common factor, and is normally applied to those with a scientific, educational, or social objective, e.g. Leiden University Medical Center (LUMC).
SIO_000688
institute
SIO_000715
patient role
a patient role is the role of an individual that is the recepient of medical care.
an object is an entity that is wholly identifiable at any instant of time during which it exists.
object
SIO_000776
measured at is a relation between a measurement value and the time measurement.
measured at
SIO_000793
real
real is the quality of an entity that exists in real space and time.
SIO_000960
unsupported
SIO_000992
unsupported is an existence quality in which there is no evidence to support the existence of the entity in any world (real or hypothetical).
age is the length of time that a person has lived or a thing has existed.
SIO_001013
age
sampling
sampling is the act of obtaining a sample, whether through selection, collection or preparation.
SIO_001049
sample
a sample is a limited quantity of something (e.g. an individual or set of individuals from a population, or a portion of a substance) to be used for testing, analysis, inspection, investigation, demonstration, or trial use.
SIO_001050
positive
SIO_001210
positive is an assertional qualifier that expresses the validity or truth of a basic assertion, e.g. in a medical examination the observation is the presence of a trait or phenotype.
negative
negative is an assertional qualifier that expresses the falsity or lack of truth of a basic assertion, e.g. in a medical examination the observation is the absence of a trait or phenotype.
SIO_001211
never refers to in none of the occasions.
SIO_001289
never
always indicates that the event occurs at all times.
SIO_001292
always
SIO_001403
is associated with
x is associated with y when x and y are logically or statistically related to one another.
organ
an organ is a collection of tissues joined in structural unit to serve a common function.
SIO_010003
a gene is part of a nucleic acid that contains all the necessary elements to encode a functional transcript.
gene
SIO_010035
protein
a protein is an organic polymer that is composed of one or more linear polymers of amino acids.
SIO_010043
phenotype
SIO_010056
a phenotype is an observable characteristic of an individual.
is encoded by
SIO_010079
a relation between two objects, in which the first object is produced from the information contained in the second object.
has bioassay type is a relation that associates the output of a property evaluated in a bioassay and the category of bioassay based on the property or process that the assay is interrogating, e.g. ADMET, functional, etc.
has bioassay type
BAO_0002854
A human-readable name for the subject.
label
label
was informed by
wasInformedBy
was informed by is a relation between two processes where one process communicates to another process. Communication is the exchange of an entity by two activities, one activity using the entity generated by the other.