hostility
subclass of: negative emotion
type: Class
description: Hostility is the intense negative emotion of being in conflict or opposition to someone or something.

line
subclass of: curve
description: A line is curve that extends in a single dimension (e.g. straight line; exhibits no curvature), and is composed of at least two fully connected points.
equivalent class: Class
  union of: line segment
  union of: ray
  union of: infinite line
type: Class

3d structure model
subclass of: tertiary structure descriptor
type: Class
description: A 3D structure model is a representation of the spatial arrangement of one or more chemical entities.

is match to
sub property of: is similar to
type: SymmetricProperty
type: ObjectProperty
description: A is match to B iff A and B are terms with similar (related, broad, close, exact) meanings
range: term
equivalent to: http://www.w3.org/2004/02/skos/core#relatedMatch
domain: term

chemical entity role
subclass of: processual role
subclass of: Restriction
  on property: is role of
  some values from: chemical entity
description: A chemical role is a processual role held by a chemical entity.
type: Class

tick mark
subclass of: line segment
description: A tick mark is a line segment that is spatially positioned perpendicular to the axis of a statistical graph and indicates the position of a specific numeric value (which may be indicated by an adjacent value label) on a value axis, or is one of a pair of tick marks that delineates the boundary of a categorical value (which may be indicated by an adjacent category label) on the categorical axis.
type: Class

excitement
description: excitement is a positive emotion of feeling great enthusiasm and eagerness.
subclass of: positive emotion
type: Class

left-handed helical
type: Class
disjoint with: right-handed helical
description: left-handed helical quality is the quality in which a clockwise screwing motion moves the helix towards the observed along the line of sight along the helix's axis.
subclass of: helicity

is alternate of
type: SymmetricProperty
type: ObjectProperty
description: is alternate of relates two specialized instances.
sub property of: is variant of
equivalent to: http://www.w3.org/ns/prov#alternateOf
example: two weather forecasts for the city of London produced at different times or by different organizations (etc) are alternates of each other, and instances of / specializations of forecasts for the city of London.

protein coding gene
subclass of: gene
equivalent to: http://purl.obolibrary.org/obo/SO_0001217
description: A gene that contains an open reading frame which codes for a protein.
type: Class

dread
subclass of: fear
type: Class
description: dread is the instense negative emotion that induces fear and apprehension.

volume number
description: volume number is a count of a sequence of periodicals.
type: Class
subclass of: count

parameter
subclass of: independent variable
description: A parameter is variable whose value changes the characteristics of a system or a function.
type: Class

intersex
type: Class
subclass of: biological sex
disjoint with: female
description: intersex is a biological sex characterised by birth with genitalia and/or secondary sexual characteristics of indeterminate sex, or which combine features of both sexes.

has member
subset: core
example: a collection of cars has as a car as a member
type: ObjectProperty
type: IrreflexiveProperty
inverse of: is member of
domain: collection
sub property of: has attribute
description: has member is a mereological relation between a collection and an item.

to be compared
description: to be compared is the capability of an object to be examined in order to note the similarities or differences among a set of objects.
subclass of: to be examined
type: Class

telephone
description: The telephone is a communications device that transmits and receives sounds, and are minimally composed of a microphone to speak into, a speaker'which reproduces the voice of the other person and a ringer which makes a sound to alert the owner when a call is coming in.
subclass of: communication device
type: Class

Cartesian coordinate axis
description: A Cartesian coordinate axis is an axis whose behavior follows that of a Cartesian coordinate system.
subclass of: Restriction
  on property: satisfies
  some values from: cartesian coordinate system
subclass of: value axis
type: Class

text span
alternative: selector
subclass of: Class
  intersection of: Restriction
    on property: has attribute
    some values from: text span start position
  intersection of: Restriction
    on property: has attribute
    some values from: text span end position
subclass of: textual entity
description: A text span is a subset of contiguous sequence of characters of a textual entity.
type: Class

affection
description: affection is an emotion characterized with a feeling or type of love for another living thing.
subclass of: positive emotion
type: Class

ecstasy
subclass of: positive emotion
description: ecstacy is an emotion characterized by a heightened state of consciousness with total involvement of a subject.
type: Class

probability value
type: Class
description: A p-value or probability value is the probability of obtaining a test statistic at least as extreme as the one that was actually observed, assuming that the null hypothesis is true
alternative: p-value
subclass of: probability measure
subclass of: Restriction
  some values from: Datatype
    with restrictions:
      min inclusive: 0.0
    with restrictions:
      max inclusive: 1.0
    on datatype: double
  on property: has value

numeric scale
description: A numeric scale of measurement is one that only specifies numeric values.
type: Class
subclass of: measurement scale
subclass of: Restriction
  some values from: Class
    intersection of: entity
    intersection of: Restriction
      on property: has value
      some values from: Literal
  on property: specifies

to interact with
subclass of: Restriction
  on property: in relation to
  some values from: entity
subclass of: Restriction
  on property: is mutual disposition of
  some values from: to be interacted with
subclass of: capability
description: to interact with is a capabililty that involves another object.
type: Class

small nucleolar RNA (snoRNA) gene
subclass of: non-protein coding RNA (ncRNA) gene
subclass of: Restriction
  some values from: small nucleolar RNA (snoRNA)
  on property: encodes
description: A small nucleolar RNA (snoRNA) gene is a gene that encodes a small RNA that are associated with the eukaryotic nucleus as components of small nucleolar ribonucleoproteins.
equivalent to: http://purl.obolibrary.org/obo/SO_0001267
type: Class

primary title
subclass of: title
type: Class
description: A primary title is a title that should be first used in describing some entity.

has boundary
example: the surface of an apple is a 2D boundary of the apple.
inverse of: is boundary of
type: ObjectProperty
description: has boundary is a mereological relation between a whole and boundary located at its periphery.
sub property of: has proper part

is version of
type: SymmetricProperty
type: TransitiveProperty
type: ObjectProperty
sub property of: is variant of
description: is version of is a relation that holds between any two versions in which one is a subsequent or alternate version of (through a branch).

standard operating procedure
subclass of: experimental protocol
description: A standard operating procedure is a specification approved for use in specific environments.
type: Class

evolving
subclass of: Restriction
  some values from: entity
  on property: has product
subclass of: creating
type: Class
description: evolving is a process that elicits change across successive generations in the inherited characteristics of biological populations.

slope
subclass of: ratio
description: A slope or gradient of a line describes its steepness, incline, or grade. A higher slope value indicates a steeper incline. Slope is normally described by the ratio of the "rise" divided by the "run" between two points on a line.
type: Class

dead
description: dead is the quality of an object in which there is a cessation of all biological functions.
type: Class
subclass of: life status

drug
subclass of: Restriction
  on property: has capability
  some values from: Class
    intersection of: to regulate
    intersection of: Restriction
      on property: in relation to
      some values from: biological entity
subclass of: chemical substance
description: A drug is a chemical substance that contains one or more active ingredients that regulate one or more biological processes.
type: Class

polonium atom
type: Class
subclass of: atom

circumference
subclass of: length of perimeter
description: circumference is the length of the outline of a circle or ellipse. it is defined as c = 2*pi*r, where r is the radius.
type: Class

specifies
type: ObjectProperty
description: A relation between an information content entity and a product that it (directly/indirectly) specifies
sub property of: describes
sub property of: is causally related with
inverse of: is specified by

small nuclear RNA (snRNA) gene
description: A small nuclear RNA (snRNA) gene is a gene that encodes a small niuclear RNA molecule.
subclass of: non-protein coding RNA (ncRNA) gene
subclass of: Restriction
  some values from: small nuclear RNA (snRNA)
  on property: encodes
equivalent to: http://purl.obolibrary.org/obo/SO_0001268
type: Class

to associate
description: to associate is the capability to physically interact with another object.
subclass of: to actively interact with
type: Class

pathogen
type: Class
subclass of: organism
description: A pathogen or infectious agent is a microorganism that causes disease in its host.

is refuting evidence for
type: ObjectProperty
sub property of: is evidence for

is lesser than or equal to
description: is greater than to is a comparison relation between two quantities in which the first has a value smaller or equal to the second.
type: ObjectProperty
type: TransitiveProperty
sub property of: is numerically comparable to

postal code
subclass of: geographic position
description: A postal code is a geographic coordinate composed of a series of letters and/or digits appended to a postal address for the purpose of sorting mail.
type: Class

hate
subclass of: disgust
type: Class
description: Hate is a deep and emotional extreme dislike, directed against a certain object or class of objects.

magnesium atom
type: Class
subclass of: atom

ununhexium atom
type: Class
subclass of: atom

chemical reaction
subclass of: chemical interaction
subclass of: Class
  intersection of: Restriction
    some values from: chemical synthesis
    on property: has proper part
  intersection of: Restriction
    on property: has proper part
    some values from: chemical destruction
description: A chemical reaction is a process that leads to the transformation of one set of chemical substances to another.
type: Class

non-polar
subclass of: polar quality
type: Class
description: non-polar is the quality of not having a dipole.

regulation of biochemical process
description: regulation of biochemical process is a process that changes the frequency, rate or extent of a target biochemical process.
type: Class
subclass of: regulation of process

entity
description: Every thing is an entity.
type: Class
subset: core

note
type: Class
subclass of: document
description: A note is a brief document.

chemical substance role
type: Class
description: A chemical substance role is a chemical entity role held by a chemical substance.
subclass of: chemical entity role
subclass of: Restriction
  on property: is role of
  some values from: chemical substance

acid-base reaction
type: Class
description: An acid-base reaction is a chemical reaction between an acid and a base.
subclass of: chemical reaction

pharmaceutical ingredient
type: Class
subclass of: Restriction
  some values from: pharmaceutical drug
  on property: is proper part of
subclass of: ingredient
equivalent class: Class
  intersection of: ingredient
  intersection of: Restriction
    some values from: pharmaceutical drug
    on property: is part of
title: A pharmaceutical ingredient is a part of a pharmaceutical preparation.

samarium atom
subclass of: atom
type: Class

has end time
sub property of: has time boundary
type: FunctionalProperty
type: ObjectProperty
range: time instant
inverse of: is end time of

is refuted by
type: ObjectProperty
inverse of: is refuting evidence for
sub property of: has evidence
description: has evidence is a relation between a proposition and something that refutes (is incompatible with) the truth of the assertion.

speculation
type: Class
description: speculation is an opinion based on incomplete evidence.
subclass of: opinion

hysteria
subclass of: negative emotion
type: Class
description: Hysteria is an unmanageable emotion.

polar coordinate
type: Class
subclass of: Restriction
  some values from: polar coordinate system
  on property: is proper part of
subclass of: coordinate
description: A polar coordinate is a position characterized by a distance from a fixed point and an angle from a fixed direction.

peer-reviewed
type: Class
description: peer-reviewed is the quality of a textual entity that has been examined and commented by a peer expert reviewer.
subclass of: reviewed
disjoint with: editor reviewed

dissatisfied qualifier
subclass of: satisfaction qualifier
type: Class

cerium atom
type: Class
subclass of: atom

catabolism
type: Class
subclass of: metabolism
description: Anabolism is the set of metabolic processes that take apart larger chemical entities units into smaller chemical entities.
disjoint with: anabolism

curved
description: curved is the quality of a line that deviates from straightness in a smooth, continuous fashion.
subclass of: curvature
type: Class

is base for
domain: quality
range: realizable entity
description: is base for is a relation between a quality and the realizable entity that it is the basis for.
type: ObjectProperty
sub property of: is attribute of
example: the solubility of salt (the disposition) is based on the molecular structure of NaCl (the quality) that allows the polarized water-molecules (the trigger) to break the ion bonds (the realization).

splice site
subclass of: RNA transcript component
type: Class
description: A splice site is a region required for the excision of an intron and connection to another exon.

peptide
description: a peptide is an organic polymer composed of between two and fifty amino acids.
type: Class
subclass of: amino acid polymer

country
type: Class
subclass of: geopolitical region
description: A country is a region legally identified as a distinct entity in political geography.

regulation of transcription
description: A process that modulates the frequency, rate or extent of transcription.
subclass of: regulation of biochemical process
type: Class

primary category axis
subclass of: category axis
disjoint with: secondary category axis
example: The category axis that corresponds to years in Graph 1 of http://tinyurl.com/opwnvm
description: A primary category axis is a category axis that either defines the sole value range or holds the larger set of categorical values specified by the secondary category axis.
type: Class

copy number variation
subclass of: count
type: Class
alternative: CNV
description: copy number variation refers to the number of deletions/duplications of a DNA region as compared to some reference state.

is opposite to
sub property of: is dissimilar to
type: SymmetricProperty
type: ObjectProperty
example: hot is the opposite of cold; left is opposite of right
description: is opposite to is a relation between two entities in which one is diametrically opposed to the other.

medical report
subclass of: report
type: Class
description: A medical report is a report prepared by a health care practioner about test outcomes or health status of an individual.

character
subclass of: language entity
description: A character is a language symbol used to construct words.
type: Class

pride
description: pride is an emotion of satisfaction of attachment toward one's own or another's choices and actions, or toward a whole group of people, and is a product of praise, independent self-reflection, or a fulfilled feeling of belonging.
type: Class
subclass of: satisfaction

medical screening
type: Class
description: 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
subclass of: medical procedure

is paralogous to
sub property of: is homologous to
type: ObjectProperty
type: SymmetricProperty
description: is paralogous to is a relation between two entities which indicates their common ancestry as a result of a gene duplication.

biochemical reaction
type: Class
equivalent to: biopax:BiochemicalReaction
equivalent to: biopax:Conversion
subclass of: Class
  intersection of: catalyzed reaction
  intersection of: Restriction
    on property: has agent
    some values from: enzyme
  intersection of: Restriction
    some values from: substrate
    on property: has target
  intersection of: Restriction
    some values from: product
    on property: has product
subclass of: catalyzed reaction
description: A biochemical reaction is a biochemical process that involves the conversion of at least one chemical participant (target) into another (product) by an enzyme (agent).

has data item
domain: dataset
description: has data item is a relation between a dataset and any described / referrenced entity.
sub property of: refers to
subset: core
inverse of: is data item in
type: ObjectProperty

depth
description: depth is the dimensional extent into a plane of a 3D projection of the object.
type: Class
subclass of: 1D extent quantity

negative emotion
subclass of: Restriction
  some values from: negative
  on property: has quality
subclass of: emotion
description: negative emotion is an emotion that does not feel good.
type: Class

bromine atom
type: Class
subclass of: atom

to increase the activation energy
description: to increase the activation energy is to require a larger amount of energy in order to form or break a chemical bond.
type: Class
alternative: to inhibit
subclass of: to change the activation energy

to separate
type: Class
subclass of: to modify
description: to separate is the capability to i) distinguish some entities based on some attribute(s) and ii) subsequently physically displace them.

position
subclass of: Restriction
  on property: has attribute
  some values from: positional identifier
subclass of: measurement value
type: Class
description: A measurement of a spatial location relative to a frame of reference or other objects.

molecular tracer role
description: A molecular tracer role is a reactant role of a molecular entity that serves as a marker for the presence, abundance, or location of a molecular target that it associates with.
type: Class
subclass of: reactant role

non-protein coding RNA (ncRNA) gene
description: A non-protein coding RNA (ncRNA) gene is a gene that encodes for a RNA transcript that is not further translated into a protein product.
type: Class
subclass of: gene
alternative: ncRNA gene
equivalent to: http://purl.obolibrary.org/obo/SO_0001263

is greater than
type: TransitiveProperty
type: ObjectProperty
inverse of: is lesser than
sub property of: is greater than or equal to
description: is greater than to is a comparison relation between two quantities in which the first has a value larger than the second.

biological fluid
subclass of: Restriction
  some values from: biological entity
  on property: is derived from
subclass of: biological entity
description: A biological fluid is a fluid of biological origin.
type: Class

has source
type: ObjectProperty
description: has source is a relation between an entity and another entity from which it stems from.
sub property of: has attribute

to filter
type: Class
description: to filter is the capability to retain certain entities based on selected attribute(s) while allowing other entities to pass through.
subclass of: to separate

scandium atom
type: Class
subclass of: atom

increased
disjoint with: decreased
subclass of: abnormal
type: Class
equivalent to: PATO:0002300
description: A quality that has a value that is increased compared to normal or average.

is specialization of
inverse of: is generalization of
example: a weather forecast for the city of London produced at a specific time is a specialization of a weather forecast for the city of London.
description: is specialization of is a relation between a more specific instance (in terms of spatial/temporal localization & other attributres) than the other.
sub property of: is variant of
equivalent to: http://www.w3.org/ns/prov#specializationOf
type: ObjectProperty

ununoctium atom
type: Class
subclass of: atom

to cool
description: to cool is the capability to decrease the internal kinetic energy of a material.
type: Class
subclass of: to reduce energy

mean
subclass of: centrality measure
alternative: arithmeritic mean
alternative: average
type: Class
description: A mean is the central tendency of a collection of numbers taken as the sum of the numbers divided by the size of the collection.

creating
alternative: creation
alternative: development
alternative: production
alternative: synthesis
alternative: formulation
subclass of: interacting
subclass of: Restriction
  some values from: object
  on property: has product
type: Class
description: creating is the process in which an entity comes into existence.

process quality
description: A process quality is quality that is associated with a process.
subclass of: quality
subclass of: Restriction
  on property: is quality of
  some values from: process
type: Class

dimensionless quantity
disjoint with: dimensional quantity
type: Class
subclass of: quantity
subclass of: Class
  complement of: Restriction
    on property: has unit
    some values from: unit of measurement
description: A dimensionless quantity is a quantity that has no associated unit.

start codon
description: A start codon is the first codon of a messenger RNA (mRNA) transcript translated by a ribosome. The start codon is almost always preceded by an untranslated region 5' UTR.
subclass of: RNA transcript component
type: Class
disjoint with: stop codon

is role of
inverse of: has role
type: FunctionalProperty
type: ObjectProperty
domain: role
sub property of: is realizable property of
description: is role of is a relation between a role and the entity that it is a property of.

thickness
type: Class
description: thickness is the shortest dimensional extent of a 3D projection of an object.
subclass of: depth

ovopub
description: An ovopub is an information content entity that contains and links to one or more resources and/or statements, including those describing its provenance, and is itself a dereferenceable resource.
type: Class
subclass of: computational entity
subset: ovopub+

is transformed from
type: ObjectProperty
type: TransitiveProperty
sub property of: is causally related from
description: A transitive temporal relation in which an entity mainstains identity from one state to another.

unique identifier
subclass of: Restriction
  some values from: entity
  on property: is unique identifier for
subclass of: identifier
equivalent class: Class
  intersection of: identifier
  intersection of: Restriction
    on property: is unique identifier for
    some values from: entity
type: Class
description: A unique identifier is an identifier that uniquely identifies some thing.

realizes
sub property of: has output
inverse of: is realized in
subset: core
type: ObjectProperty
description: realizes is a relation between a process and a realizable entity (role, function, disposition).

directed acyclic graph
alternative: dag
type: Class
description: a directed acyclic graph or DAG is a network digram that contains directed edges in which nodes may have multiple parents, but there are no cycles.
subclass of: network diagram

is inequal to
type: SymmetricProperty
type: ObjectProperty
sub property of: is numerically comparable to
description: is inequal to is a comparison relation between two quantities whose value are not the same.

written
description: written is the quality of information that is embodied as visual glyphs in some material form.
type: Class
subclass of: text quality

is component part of
type: ObjectProperty
sub property of: is direct part of
description: is component part of is a relation between a component and a whole, where the component is instrinsic to the whole, and loss of the part would change the kind that the whole is.
inverse of: has component part
subset: core

learning
subclass of: creating
subclass of: Restriction
  on property: has product
  some values from: proposition
description: learning is the agentive process of acquiring knowledge.
type: Class

decreased chemical destruction
description: decreased chemical destruction is a process in which there is a decrease in the amount of chemical destroyed relative to some reference process
subclass of: Restriction
  on property: has attribute
  some values from: Class
    intersection of: count
    intersection of: Restriction
      on property: is greater than
      some values from: Class
        intersection of: count
        intersection of: Restriction
subclass of: Restriction
  on property: has quality
  some values from: increased
subclass of: Restriction
  some values from: chemical destruction
  on property: in relation to
subclass of: chemical destruction
type: Class

operon
description: An operon is a collection of contiguous genes transcribed as a single (polycistronic) mRNA.
type: Class
subclass of: Restriction
  on property: is proper part of
  some values from: deoxyribonucleic acid
subclass of: nucleic acid part
subclass of: Restriction
  some values from: gene
  on property: has component part
subclass of: Restriction
  on property: is transcribed into
  some values from: RNA transcript
similar to: SO:0000178

antibody
type: Class
description: An antibody (also known as immunoglobulins, abbreviated Ig) are gamma globulin proteins that are used by the immune system to identify and neutralize foreign objects. They are typically made of two large heavy chains and two small light chains.
subclass of: protein complex

results in
inverse of: is result of
type: ObjectProperty
sub property of: is causally related to

web service invocation
subclass of: software execution
description: A web service invocation involves the execution of a web service.
type: Class

co-enzyme role
description: A co-factor role in which the chemical entity is modified during catalysis and must be regenerated.
subclass of: cofactor role
subclass of: substrate role
type: Class

is equal to
type: TransitiveProperty
type: ObjectProperty
type: SymmetricProperty
sub property of: is numerically comparable to
description: is equal to is a comparison relation between two quantities whose value are exactly the same.

double stranded RNA
subclass of: double stranded nucleic acid
subclass of: Restriction
  on class: ribonucleic acid
  qualified cardinality: 2
  on property: has proper part
description: double stranded nucleic acid is a molecular complex composed of two weakly connected ribonucleic acids.
type: Class

cellular quality
type: Class
subclass of: biological quality
subclass of: Restriction
  some values from: cell
  on property: is quality of
description: cellular quality is the quality of a cell

reagent role
subclass of: chemical substance role
subclass of: Restriction
  on property: is role of
  some values from: reagent
description: A role of a chemical substance that participates in a chemical reaction as part of some scientific investigation.
type: Class

document component
type: Class
subclass of: textual entity
description: A bibliographic attribute is an attribute related to publications.

publication
type: Class
subclass of: document
description: A publication is a document that has been made available by a publisher.

informational quality
subclass of: quality
subclass of: Restriction
  on property: is quality of
  some values from: information content entity
type: Class
description: An informational quality is a quality that pertains to information.

lipid residue
description: A lipid residue is a part of an organic molecule that was derived from a lipid molecule.
subclass of: organic submolecule
subclass of: Restriction
  on property: is part of
  some values from: lipid
type: Class

transcription
description: transcription is the process of creating a complementary RNA copy of a sequence of DNA.
subclass of: Restriction
  some values from: Class
    intersection of: ribonucleic acid
    intersection of: Restriction
      some values from: deoxyribonucleic acid
      on property: is transcribed from
  on property: has output
subclass of: Restriction
  on property: has input
  some values from: deoxyribonucleic acid
subclass of: biosynthesis
type: Class

barium atom
type: Class
subclass of: atom

right open interval
description: a right open interval is an interval in which there is no element that is greater than all other elements.
type: Class
subclass of: interval

euphoria
type: Class
subclass of: happiness
description: euphoria is an emotion characterized by intense feelings of well-being, elation, happiness, ecstasy, excitement, and joy.

nobelium atom
subclass of: atom
type: Class

record
subclass of: Restriction
  some values from: identifier
  on property: has unique identifier
subclass of: document
type: Class
description: A record is a document containing a collection of statements about some entity.

functional specification
description: A functional specification is a specification that describes the characteristics of an object.
type: Class
subclass of: Restriction
  on property: specifies
  some values from: Class
    union of: material entity
    union of: information content entity
subclass of: specification

to investigate
description: to investigate is the capability to uncover facts.
type: Class
subclass of: to actively interact with

bubble chart
description: A bubble chart contains circles whose area corresponds to a value.
subclass of: chart
type: Class

edition number
description: An edition number is count of a literary work edited and published, as by a certain editor or in a certain manner including being printed during some interval of time.
subclass of: count
type: Class

telephone number
subclass of: informational entity identifier
type: Class
description: a telephone number is an identifier used to connect to a physical device capable of transfering voice or data over a network.

true
type: Class
subclass of: Restriction
  has value: true
  on property: has value
subclass of: truth value
disjoint with: false
description: true is a truth value that indicates that it holds under all possible worlds.

molecular pocket
description: A molecular pocket is a site on a molecule that appears as a depression into the structure.
type: Class
subclass of: molecular site

results section
description: The results section is a document section describing the main findings of the study.
type: Class
subclass of: document section

left open interval
type: Class
subclass of: interval
description: a left open interval is an interval in which there is no element that is smaller than all other elements.

increasing line
description: An increasing line is a line segment in which the startpoint and endpoint are ordered along one dimension and the difference of values in a second dimension is positive.
subclass of: trend line
type: Class

bent
description: bent is the quality of a line being sharply curved or having an angle.
type: Class
subclass of: curvature

doctor
subclass of: Restriction
  some values from: doctor role
  on property: has role
subclass of: medical practitioner
type: Class
description: A doctor is an individual who practices medicine, which is concerned with promoting, maintaining or restoring human health through the study, diagnosis, and treatment of disease, injury, and other physical and mental impairments.

is member of
sub property of: is attribute of
description: is member of is a mereological relation between a item and a collection.
type: ObjectProperty

television program
type: Class
description: A television program is a audiovisual media that is produced and broadcast using a television.
subclass of: media

t-statistic based decreased differential gene expression
subclass of: Restriction
  some values from: Class
    intersection of: t-statistic
    intersection of: Restriction
      on property: has value
      some values from: Datatype
        on datatype: double
  on property: has attribute
subclass of: differential gene expression ratio
description: A t-statistic based decreased differential gene expression is a differential gene expression ratio in which the t-statistic is less than zero.
type: Class

dysfunction
type: Class
subclass of: capability
description: dysfunction is a capability to act in a manner that is abnormal or opposite to the object's typical function.

most of the time
subclass of: temporal qualifier
type: Class
alternative: most of the time
description: most refers to in the majority of occasions

has capability
inverse of: is capability of
example: SIO has the capability to semantically integrate data.
sub property of: has realizable property
type: InverseFunctionalProperty
type: ObjectProperty
range: capability
description: has capability is a relation between an entity and the capability that it bears.

is broader than (t)
domain: term
type: ObjectProperty
type: TransitiveProperty
inverse of: is narrower than (t)
range: term
sub property of: is similar to
equivalent to: http://www.w3.org/2004/02/skos/core#narrowerTransitive
description: A is broader than B (t) iff for A is broader than B.

area
subclass of: 2D extent quantity
type: Class
description: area is a quantity that pertains to the extent of a two-dimensional surface or shape, or planar lamina, in the plane.

positional identifier
description: A positional description is a description of location using some system or frame of reference.
type: Class
subclass of: Restriction
  on property: is attribute of
  some values from: position
subclass of: identifier

diastereomer
subclass of: stereoisomer
type: Class
description: A diastereomer is a stereoisomer that is not a mirror image of its isomer.

heterocyclic ring
disjoint with: homocyclic ring
description: A heterocyclic ring is a ring containing a hetero atom.
type: Class
subclass of: ring

plot
subclass of: figure part
type: Class
example: The square portion of the chart bounded by lines that overlap with the two axes in Graph 1 of http://tinyurl.com/opwnvm
description: A plot is a part of a figure that corresponds to the spatial region between the set of axes.
disjoint with: legend

belief
subclass of: proposition
subclass of: Restriction
  some values from: Class
    intersection of: true
    intersection of: Restriction
      on property: is quality of
      some values from: proposition
  on property: specifies
description: A belief is a proposition that is believed to be true.
type: Class

terror
description: terror is the extreme feeling of fear.
type: Class
subclass of: dread

scaled value axis
subclass of: value axis
description: A scaled value axis is a value axis in which the value range was subject to a mathematic transformation.
type: Class

cellular organism
description: A cellular organism is an organism that contains one or more cells.
equivalent class: Class
  union of: multicellular organism
  union of: unicellular organism
disjoint with: non-cellular organism
type: Class
subclass of: organism

medical data
subclass of: biological data
description: medical data is data of interest to medicine.
type: Class

information decoding
subclass of: information translation
type: Class

synthetic quality
type: Class
description: synthetic quality is the quality of a manufactured object that has similar properties as naturally occuring objects.
subclass of: object relational quality

satisfies
domain: entity
sub property of: has attribute
type: ObjectProperty
description: satisfies is a relation between an entity and the specification or objective that it conforms to.
range: description
inverse of: is satisfied by

ionic compound
description: An ionic compound is a mereological maximal sum of weakly connected paired positive and negative ions.
subclass of: Restriction
  on property: has direct part
  on class: anion
  qualified cardinality: 1
subclass of: Restriction
  qualified cardinality: 1
  on property: has direct part
  on class: cation
subclass of: binary compound
type: Class

x-axis
description: An x-axis is a Cartesian coordinate axis that is aligned with the horizon.
alternative: horizontal axis
type: Class
comment: In most figures, this axis represents categories, such as months, market segments, or other non-numeric data.
subclass of: Cartesian coordinate axis
disjoint with: y-axis
disjoint with: z-axis
example: The horizontal axis in http://tinyurl.com/opwnvm

nonpolar solvent
type: Class
subclass of: Restriction
  some values from: non-polar
  on property: has quality
subclass of: solvent
description: A non-polar solvent is a solvent that exhibits a non-polar quality.

guilt
subclass of: negative emotion
alternative: guilty
type: Class
description: Guilt is the emotion borne from feeling responsible for the commission of an offense and arises out of public humiliation.

a collection of replicates
type: Class
description: a collection of replicates is a collection composed of items that are a facsimile, reproduction, or copy of other items in the collection.
alternative: replicates
subclass of: Restriction
  on property: has member
  some values from: replicate
subclass of: collection

gold atom
type: Class
subclass of: atom

is input in
example: glucose and ATP are inputs in the hexokinase-mediated conversion of glucose to glucose-6-phosphate.
subset: sadi
sub property of: is participant in
type: ObjectProperty
description: is input in is a relation between an entity and a process, where the entity is present at the beginning of the process.

versioned record
description: A versioned record is a record for which there exists another variant based that was derived via modification of the facts.
subclass of: record
type: Class

OBO ontology
type: Class
subclass of: ontology document
description: An OBO ontology is an ontology document as specified by the Open Biological Ontology community.

ploidy
subclass of: cellular quality
description: ploidy is the cellular quality relating to the amount of DNA contained in a cell.
type: Class

assertional qualifier
type: Class
description: An assertional qualifier is the quality of affirmation, either being positive or negative.
equivalent class: Class
  union of: positive
  union of: negative
subclass of: quality

nucleic acid part
subclass of: Restriction
  some values from: nucleotide residue
  on property: has direct part
subclass of: Restriction
  on property: is part of
  some values from: nucleic acid
subclass of: organic submolecule
type: Class
description: A nucleic acid part is a component of a nucleic acid.

consensus
type: Class
subclass of: agreement
description: consensus is an acceptable resolution, one that can be supported, even if not the preferred outcome for each individual.

duplicate
description: a duplicate is an object that is an exact copy of another item
subclass of: collection item
subclass of: Restriction
  some values from: Class
    intersection of: duplicate role
    intersection of: Restriction
      on property: in relation to
      some values from: object
  on property: has role
type: Class

object model
subclass of: model
description: An object model is a representation of an object.
type: Class

vector
type: Class
subclass of: Restriction
  on property: is part of
  some values from: vector space
subclass of: rank nonzero tensor
subclass of: Restriction
  on property: has proper part
  all values from: scalar
description: a vector is a rank 1 tensor that is described by n-dimension of scalars.
alternative: rank 1 tensor

hydrogen bond
type: Class
description: A hydrogen bond is a weak submolecular interaction formed between a hydrogen atom and a electronegative atom.
subclass of: weak submolecular component

triangle
subclass of: polygon
type: Class
description: A triangle is a polygon composed of three points and three line segments, in which each point is fully connected to another point along through the line segment.

carbohydrate
type: Class
alternative: oligosaccharide
alternative: saccharide
subclass of: Restriction
  on property: has direct part
  min qualified cardinality: 2
  on class: carbohydrate residue
subclass of: organic polymer
description: a carbohydrate is an organic molecule composed of two or more monosaccharides.

patient role
type: Class
subclass of: medical role
description: A patient role is the role of an individual that is the recepient of medical care.

protein coding sequence
type: Class
alternative: CDS
alternative: coding sequence
description: A protein coding sequence (CDS) is the region of DNA that is translated to form proteins. The CDS refers to those nucleotides (concatenated exons) that can be divided into codons which are actually translated into amino acids by the ribosomal translation machinery.
subclass of: gene component

5' splice site
type: Class
subclass of: splice site
description: The 5' splice site is the terminal region of an exon that is 5' to the intron that is to be excised.

regulation of molecular quantity
type: Class
description: A process that modulates the frequency, rate or extent of process involved in the creation or destruction of a molecule.
subclass of: regulation of object quantity

line segment
subclass of: Restriction
  on property: has component part
  qualified cardinality: 2
  on class: terminal point
subclass of: line
description: A line segment is a line and a part of a curve that is (inclusively) bounded by two terminal points.
type: Class

role
type: Class
subset: core
description: A role is a realizable entity that describes behaviours, rights and obligations of an entity in some particular circumstance.
subclass of: realizable entity

speech
subclass of: communicating
description: speech is the expression of thoughts and feelings by sound.
type: Class

to serve as a primer for DNA synthesis
type: Class
description: to serve as a primer for DNA synthesis is the capability of a short nucleic acid to bind to the 5' end of single strand of DNA template and help initiate DNA replication.
subclass of: to serve as

behaviour
subclass of: process
subset: behaviour+
subset: core
type: Class
description: Behaviour is the set of actions and mannerisms made by systems (biological or otherwise) in response to stimuli or inputs, whether internal or external, conscious or subconscious, overt or covert, and voluntary or involuntary.

ununpentium atom
type: Class
subclass of: atom

open interval
example: (0,1) is an open interval that is greater than 0 and less than 1.
subclass of: right open interval
subclass of: left open interval
type: Class
description: an open interval is an interval that does not include its endpoints.

mercury atom
type: Class
subclass of: atom

diamond
type: Class
subclass of: carbon allotrope
description: diamond is a carbon allotrope in which each carbon atom in diamond is covalently bonded to four other carbons in a tetrahedron. These tetrahedrons together form a 3-dimensional network of puckered six-membered rings of atoms.

z cartesian coordinate
description: A z cartesian coordinate is the coordinate of an object onto the z-axis of a cartesian coordinate system.
type: Class
subclass of: cartesian coordinate

contentment
description: contentment is an emotion characterized by acknowledgement and satisfaction of the current state of affairs.
type: Class
subclass of: happiness

information content entity
subclass of: Restriction
  all values from: information content entity
  on property: has proper part
subclass of: object
type: Class
subset: core
subset: ice+
description: information content entity is an object that requires some background knowledge or procedure to correctly interpret.

quaternary structure
type: Class
subclass of: biomolecular structure descriptor
description: A quaternary structure descriptor describes topological patterns in a multi-unit biopolymer complex.

generic name
description: A generic name is the preferred name provided by manufacturer.
subclass of: name
type: Class

is contained in
type: ObjectProperty
type: TransitiveProperty
sub property of: is located in
equivalent to: OBO_REL:contained_in
subset: core
inverse of: contains
description: A is contained in B iff the spatial region occupied by A is part of the spatial region occupied by B and A is not part of B. [T]

mouse
subclass of: multicellular organism
description: A mouse is a small mammal belonging to the order of rodents, characteristically having a pointed snout, small rounded ears, and a long naked or almost hairless tail.
type: Class

inclusion criterion
subclass of: criterion
type: Class
description: An inclusion criterion is a criterion that must be present to satisfy some objective.
disjoint with: exclusion criterion

doctor role
alternative: physician
description: A doctor role is the role of an individual who practices medicine, which is concerned with promoting, maintaining or restoring human health through the study, diagnosis, and treatment of disease, injury, and other physical and mental impairments.
subclass of: medical role
type: Class

middle name
description: a middle name is a name assigned to an individual that is not the first or last name.
subclass of: name
type: Class

gene-disease association linked with germline modifying mutation
type: Class
description: A gene-variant disease association in which a germline mutation in the gene modifies the clinical presentation of the disease, and it may be passed on to offspring.
subclass of: gene-disease association linked with modifying mutation

monomer
subclass of: submolecule
subclass of: Restriction
  on property: is direct part of
  some values from: biopolymer
type: Class
description: A monomer is a submolecule that is proper part of some polymer, and is a building block for such polymer.

flowchart
type: Class
description: A flowchart is a diagram that represents an algorithm or process, showing the steps as boxes of various kinds, and their order by connecting these with arrows.
subclass of: chart

desire
description: desire is a strong emotion of wanting to have something or wishing for something to happen.
subclass of: interest
type: Class

is part of
subset: core
type: ReflexiveProperty
type: ObjectProperty
type: TransitiveProperty
equivalent to: OBO_REL:part_of
description: is part of is a transitive, reflexive and anti-symmetric mereological relation between a whole and itself or a part and its whole.
sub property of: is located in

nullizygous
type: Class
description: nullizygous is the quality of a biological organism in which there are no allelles at a given locus.
subclass of: zygosity

centrifugation pellet
description: A centrifugation pellet is a solid substance that forms as a result of compaction by a centrifuge.
subclass of: centrifugation substance
type: Class
disjoint with: supernatant

chaoite
subclass of: carbon allotrope
description: chaoite is an allotrope of carbon that is slightly harder than graphite with a reflection colour of grey to white.
type: Class

university
description: A university is an institution of higher education and research which grants academic degrees in a variety of subjects and provides both undergraduate education and postgraduate education.
subclass of: academic organization
type: Class

geographic position
description: A geographic position is the coordinate of an entity against some geographic coordinate system.
subclass of: position
type: Class

not started
description: not started is the status of a process that is predicted to exist but has not yet begun.
subclass of: process status
type: Class

user account
type: Class
subclass of: computational entity
description: user account allows a user to authenticate to system services and be granted authorization to access them.

is weakly interacting with
sub property of: is weakly interacting with (transitive)
sub property of: is directly connected to
type: ObjectProperty
type: SymmetricProperty

sequence assembly
subclass of: symbolic sequence
description: A sequence assembly is a symbolic sequence representing an ordered sequence of biological symbols that is produced by a sequence assembly process through the integration of multiple sequence inputs.
type: Class

chemical-gene association
type: Class
subclass of: Restriction
  on property: refers to
  some values from: gene
subclass of: Restriction
  some values from: chemical entity
  on property: refers to
subclass of: association
description: a chemical-gene association is an association between a chemical and a gene.

map
type: Class
subclass of: chart
description: A map is a a visual representation of an area that depicts the relationship between elements of that space.

interval
subclass of: mathematical entity
subclass of: set
type: Class
description: an interval is a set of real numbers with the property that any number that lies between two numbers in the set is also included in the set.
description: An interval is a set of real numbers that includes all numbers between any two numbers in the set.
example: The set of all numbers x satisfying 0<=x<=1 is an interval which contains 0 and 1, as well as numbers between them.

positive emotion
description: A positive emotion is an emotion that feels good.
subclass of: emotion
subclass of: Restriction
  some values from: positive
  on property: has quality
type: Class

sound wave
type: Class
subclass of: wave
description: A sound wave is a mechanical wave that is an oscillation of pressure transmitted through a solid, liquid, or gas, composed of frequencies within the range of hearing.

gene component
subclass of: nucleic acid part
subclass of: Restriction
  on property: is proper part of
  some values from: gene
type: Class
description: A gene component is a component of a gene.

patient
description: A patient is an individual that is the recepient of medical care.
subclass of: person
subclass of: Restriction
  some values from: patient role
  on property: has role
type: Class

chemical reaction pathway
subclass of: pathway
subclass of: Restriction
  all values from: chemical reaction
  on property: has member
subclass of: Restriction
  some values from: Restriction
    on property: has proper part
    some values from: chemical reaction
  on property: specifies
subclass of: Restriction
  on property: is model of
  some values from: process
type: Class
description: A chemical reaction pathway specifies a series of chemical reactions towards producing some chemical product.

decreased molecular degradation from decreased regulation
description: A process that decreases the frequency, rate or extent of process involved in the destruction of a molecule as a result of decreased regulation.
subclass of: regulation of molecular degradation
type: Class

photograph
type: Class
subclass of: image
description: A photograph is an image created by light falling on a light-sensitive surface.
alternative: photo

is disposition of
domain: disposition
type: FunctionalProperty
type: ObjectProperty
sub property of: is capability of
description: is disposition of is a relation between a disposition and the entity that it is a property of.

fatal
description: fatal is a qualitative intensity value that is more intense than severe, leading to the death/non-functioning of a system.
subclass of: intensity
type: Class

is directly after
sub property of: is directly connected to
sub property of: is positionally after
type: FunctionalProperty
type: ObjectProperty
description: is directly after is a relation between entities placed on a dimensional axis in which the projection of the position of the first entity is numerically greater than the projection of the position of the second entity, and the entities are adjacent to one another.
inverse of: is directly before

nucleic acid strand
subclass of: Restriction
  some values from: double stranded nucleic acid
  on property: is proper part of
subclass of: nucleic acid
type: Class
description: A nucleic acid strand is a single-stranded nucleic acid that is part of a double stranded nucleic acid complex.
equivalent class: Class
  union of: positive nucleic acid strand
  union of: negative nucleic acid strand

bottom value axis
subclass of: value axis
description: A bottom value axis is a value axis that is spatially positioned to the bottom of the plot area.
type: Class

objective
type: Class
subclass of: Restriction
  on property: is realized in
  all values from: process
subclass of: Restriction
  all values from: action specification
  on property: is specified by
subclass of: proposition
description: An objective is a proposition that indicates a planned or anticipated outcome.

positive
disjoint with: negative
subclass of: assertional qualifier
description: positive is an assertional qualifier that expresses the validity or truth of a basic assertion.
type: Class

paragraph
description: A paragraph is a self-contained unit of written discourse consisting of one or more sentences.
type: Class
subclass of: textual entity
subclass of: Restriction
  some values from: sentence
  on property: has direct part

empty set
description: An empty set is a set for which there are exactly 0 members.
subclass of: Restriction
  on class: entity
  qualified cardinality: 0
  on property: has member
subclass of: set
type: Class

has direct part
sub property of: has proper part
type: ObjectProperty
description: has direct part is a relation to specify a part at a particular level of granularity
example: a car has an engine as a direct part
inverse of: is direct part of

binary scale
type: Class
subclass of: measurement scale
description: A binary scale is a measurement scale that specifies a choice between two values.

gene enhancer
description: A gene enhancer is a short region of DNA that can be bound with proteins to enhance transcription levels of genes in a gene cluster.
subclass of: gene regulatory component
type: Class

intron
description: An intron is a region of a gene that is removed from the final protein open reading frame.
type: Class
subclass of: Restriction
  some values from: gene
  on property: is proper part of
subclass of: gene component

standard score
subclass of: probability measure
description: A standard score is the (signed) number of standard deviations an observation or datum is above the mean.
type: Class
alternative: z-value, z-score, normal score, standardadized variable.

signal
subclass of: molecule
description: A signal is an object that initiates a sequence of events.
type: Class

chemical-pathway association
alternative: drug-pathway association
subclass of: Restriction
  on property: refers to
  some values from: pathway
subclass of: Restriction
  on property: refers to
  some values from: chemical entity
subclass of: association
description: a chemical-pathway association is an association between a chemical and a pathway.
type: Class

rate of change
subclass of: dimensional quantity
type: Class
description: The amount of change accumulated per unit time.

is model of
example: the architect builds a model that represents the building she envisions.
description: is model of is a relation between a model (an artifact) and the entity it purports to represent.
sub property of: represents
type: ObjectProperty
inverse of: is modelled by

pity
description: Pity is the emotion of sadness or sorrow for another.
subclass of: negative emotion
type: Class

structure
type: Class
description: structure is the specification that refers to the composition and arrangement of parts of an object.
subclass of: functional specification

concentration
subclass of: 3D extent quantity
subclass of: Restriction
  on property: is attribute of
  some values from: Class
    intersection of: chemical substance
    intersection of: Restriction
      on property: is proper part of
      some values from: heterogeneous substance
    intersection of: Restriction
      some values from: chemical substance
      on property: in relation to
type: Class
description: concentration is the amount of substance per unit volume of a solution

to be activated
description: to be activated is the capability to be modified in such a way that the conformational change leads to an increase in another capability.
type: Class
subclass of: to be conformationally changed

sentence
description: A sentence is a grammatical unit consisting of one or more words that bear minimal syntactic relation to the words that precede or follow it.
subclass of: phrase
type: Class

to transport
subclass of: to actively interact with
type: Class
description: to transport is the capability to displace a material from one location to another.

corporation
subclass of: organization
type: Class
description: A corporation is an organization that is granted a charter recognizing it as a separate legal entity.

to reduce
type: Class
subclass of: to modify oxidation state of
description: to reduce is the capability to add an electron or an decrease in oxidation state of a chemical entity.

chromium atom
type: Class
subclass of: atom

word
subclass of: Restriction
  some values from: character
  on property: has direct part
subclass of: language entity
subclass of: Restriction
  on property: has part
  some values from: morpheme
type: Class
description: A word is the smallest free form (an item that may be expressed in isolation with semantic or pragmatic content) in a language.

hyponym
description: A hyponym is a term with a narrower meaning.
equivalent class: Class
  intersection of: term variant
  intersection of: Restriction
    some values from: term
    on property: is narrower than
subclass of: term variant
type: Class

criterion
subclass of: design specification
type: Class
description: A criterion is a specification to describe properties used for evaluation.

double displacement reaction
subclass of: displacement reaction
type: Class
description: A double displacement reaction is a displacement reaction in which two molecules swap ions, effectively displacing each other to form two new molecules.

planning
subclass of: creating
subclass of: Restriction
  some values from: Class
    union of: plan
    union of: design
  on property: has product
type: Class
description: planning is the agentive process of developing a plan that specifies a set of actions in order to meet a set of goals or objectives.

notation
subclass of: specification
type: Class
description: a notation is a series or system of written symbols used to represent numbers, amounts, or elements.

treemap
description: A treemap is a chart that fully partitions the area into a set of rectangles whose area represents its relative value.
subclass of: mereological chart
type: Class

movie
description: A movie is a series of images that are displayed in rapid succession to give the impression of movement.
subclass of: media
type: Class
alternative: film
alternative: moving pictures

decreased frequency of process from increased regulation
type: Class
description: The increase of regulation leads to a decreased occurence of processes of the target process type.
subclass of: regulation of process frequency

legislation
type: Class
description: A legal document proposing or enacting a law or a group of laws.
subclass of: legal document

molecular site
description: A moleclar site is a spatial region bounded (in part or in whole) by a molecule and may be occupied by other material entities (e.g. drugs).
type: Class
subclass of: site

agreement quality
equivalent class: Class
  union of: agreement
  union of: disagreement
type: Class
description: agreement quality is a quality that exhibits the degree of consensus for some set of assertions.
subclass of: informational quality

methods section
type: Class
description: The methods section is a document section containing a description of the methods used in the study.
subclass of: document section

to serve as a template for molecular synthesis
subclass of: to serve as
type: Class
description: to serve as a template for molecular synthesis is the capability of a chemical entity to provide the necessary information or scaffold by which another molecule may be produced.

cadmium atom
subclass of: atom
type: Class

action specification
alternative: effective specification
subclass of: Restriction
  on property: satisfies
  some values from: objective
subclass of: specification
subclass of: Restriction
  on property: is manifested as
  all values from: process
subclass of: Restriction
  on property: specifies
  some values from: process
description: An action specification is a specification composed of a sequence of instructions to achieve some objective.
type: Class

conference proceedings
subclass of: book
type: Class
description: A conference proceedings is a book composed of papers presented at a conference.

document version
subclass of: version label
type: Class
description: A document version is a version of a work in some sequence of derivative works.

process up-regulation
description: process up-regulation is a process that increases the frequency, rate or extent of one or more processes in relation to a reference state.
alternative: positive regulation
subclass of: regulation of process
disjoint with: process down-regulation
type: Class

text span start position
type: Class
description: text span start position is the position (offset) of the first character of a text span in relation the text it is from.
subclass of: start position

to observe
type: Class
description: to observe is the capability to watch attentively.
subclass of: to passively interact with

to be translocated
type: Class
alternative: to be moved
subclass of: Restriction
  some values from: to translocate
  on property: is mutual disposition of
subclass of: to be interacted with
description: to be translocated is the capability to be physically displaced from one location to another

is realized in
example: the role of a patient is realized in medical examination
type: ObjectProperty
sub property of: is participant in

non-cellular organism
description: A non-cellular organism is an organism that does not contain a cell.
subclass of: organism
type: Class

gadolinium atom
type: Class
subclass of: atom

to boil
description: to boil is the capability to increase the internal kinetic energy of a material such that it changes state from a solid or liquid to a gas.
subclass of: to heat
type: Class

is capability of
type: ObjectProperty
type: FunctionalProperty
domain: capability
sub property of: is realizable property of
description: is capability of is a relation between a capability and the entity that bears it.

subject role
subclass of: investigational role
description: A subject role is the role of an individual that is the target of the study.
type: Class

materials and methods section
subclass of: document section
description: The materials and methods section is a document section containing a description of the materials and methods used in the study.
type: Class

occupational role
description: An occupational role is a social role that pertains to an organizational structure.
subclass of: social role
type: Class

discouragement
subclass of: negative emotion
alternative: discouraged
type: Class
description: Discouragement is the emtion of having lost confidence or enthusiasm.

refers to
type: ObjectProperty
subset: nlp+
subset: core
description: refers to is a relation between one entity and the entity that it makes reference to.
sub property of: is related to

real
disjoint with: virtual
disjoint with: fictional
type: Class
description: real is the quality of an entity that exists in real space and time.
subclass of: existence quality

geopolitical region
example: The geographic region bounded by Canada; the spatial region occupied by the US embassy in Ottawa.
type: Class
subclass of: geolegal region
description: a geopolitical region is a geographic region recognized by social or legal convention.

chemical identifier
subclass of: physical entity identifier
description: A chemical identifier is an identifier for a chemical entity
type: Class

information processing
type: Class
subclass of: procedure
description: information processing is a process that involves the generation or use of information.

protein isoform
description: a protein isoform is a protein that is a structural variant (different sequence of amino acids and/or post-translational modifications) of another protein, but encoded by the same gene.
type: Class
subclass of: Restriction
  some values from: protein coding gene
  on property: is encoded by
subclass of: protein
subclass of: isomer

is comparable to
description: is comparable to is a relation between two entities that share at least one feature whose value can be compared.
type: SymmetricProperty
type: ObjectProperty
sub property of: is related to
subset: core

antonym
description: An antonym is a word with opposite or nearly opposite meaning.
equivalent class: Class
  intersection of: term variant
  intersection of: Restriction
    some values from: term
    on property: is opposite to
type: Class
subclass of: term variant

regulation of object consumption
type: Class
subclass of: regulation of object quantity
description: A process that modulates the frequency, rate or extent of process involved in the consumption of an object.

vector line
type: Class
subclass of: ray
description: A vector line is a line which that is bounded by a startpoint and extends outwards along one dimension.

agreement
type: Class
disjoint with: disagreement
description: agreement is the result of consensus decision making when members of the group agree.
subclass of: agreement quality

joy
type: Class
subclass of: happiness
description: joy is an emotion of intense happiness.

submolecular entity
description: A submolecular entity is a chemical entity that is a part of a molecule.
subclass of: chemical entity
subclass of: Restriction
  some values from: chemical entity
  on property: is part of
type: Class

passive transport
disjoint with: active transport
subclass of: membrane transport
type: Class
description: passive transport is the movement of a substance across a membrane and does not require chemical energy.

is homologous to
type: ObjectProperty
type: SymmetricProperty
description: a relation between two entities which indicates their common ancestry.
sub property of: is variant of

chemical functional group
subclass of: submolecule
type: Class
alternative: chemical group
description: A chemical functional group is a submolecule that confers specific chemical properties.

sick
subclass of: alive
type: Class
description: sick is the status of a living organism that is behaving at a sub-optimal level.

e.coli
type: Class
subclass of: unicellular organism
description: Escherichia coli (e coli) is a Gram-negative, rod-shaped bacterium that is commonly found in the lower intestine of warm-blooded organisms.

standard
description: A standard is a socially-agreed upon specification.
subclass of: specification
subclass of: Restriction
  on property: has quality
  some values from: agreement
type: Class

is described by
inverse of: describes
sub property of: is referred to by
description: is described by is a relation between one entity and another entity that provides a description (detailed account) of it.
type: ObjectProperty

implies (->)
description: Implication is a logical operator that holds between a set T of propositions and a proposition B, when every model (or interpretation or valuation) of T is also a model of B.
type: Class
subclass of: logical operator

conclusion
type: Class
subclass of: proposition
description: A conclusion is a proposition which is reached after considering the evidence, arguments or premises.

DisGeNET Pleiotropy Index
type: Class
subclass of: ratio
description: The DisGeNET pleiotropy index is a measure of specificity as it pertains to classes of disease. The disease pleotropy index is computed from the ratio of the number of disease classes associated with an entity over the total number of disease classes multplied by 100. The measure is defined here: http://www.disgenet.org/web/DisGeNET/menu/dbinfo#pleiotropy

zirconium atom
subclass of: atom
type: Class

chemical salt
type: Class
alternative: salt
description: a chemical salt is a molecular complex composed of an ionic assembly of cations and anions.
subclass of: molecular complex

to record
subclass of: to actively interact with
description: to record is the capability to detect and transcribe information in a specified format on some physical medium.
type: Class

variant role
description: A variant role is a comparative role in which the value of an attribute differs when compared to another entity
type: Class
subclass of: comparative role

tag cloud
subclass of: textual chart
description: A tag cloud is a visualization of word frequencies.
type: Class
alternative: word cloud

medical intervention
type: Class
subclass of: medical procedure
description: a medical intervention is a medical procedure to treat (to cure or alleviate) a health condition.

line-bar graph
type: Class
description: A line-bar graph statistical graph that contains both lines and bars.
subclass of: statistical graph
example: Graph 8 in http://tinyurl.com/opwnvm

ring
equivalent class: Class
  union of: heterocyclic ring
  union of: homocyclic ring
description: A ring is a submolecule with a circular topology.
type: Class
subclass of: chemical functional group
subclass of: Restriction
  min qualified cardinality: 3
  on property: has component part
  on class: atom

graphite
subclass of: carbon allotrope
type: Class
description: graphite is an allotrope of carbon which is a conductor, and is the most stable form of solid carbon.

symport enabled secondary active transport
disjoint with: antiport enabled secondary active transport
description: symport enabled secondary active transport is a secondary active transfort in which both ion and molecule are transported in the same direction simultaneously.
subclass of: secondary active transport
type: Class

frequency
description: Frequency is the number of occurrences of a repeating event per unit time
type: Class
subclass of: rate of change

suffering
subclass of: hurt
type: Class
description: Suffering is the unpleasant emotion and aversion associated with the perception of harm or threat of harm in an individual.

purpose
description: purpose is the reason for which something is done or created or for which something exists.
type: Class
subclass of: reason

alive
subclass of: life status
description: alive is the state of a biological organism that exhibits biological functions.
type: Class
disjoint with: dead

medical practitioner
description: A medical practioner is an individual that provides medical care.
subclass of: person
type: Class

ribonucleotide residue
description: A ribonucleotide residue is a part of a molecule that derives from a ribonucleotide.
type: Class
subclass of: nucleotide residue

chemical degradation pathway
description: A chemical degradation pathway is a pathway involved in the disassembly of a chemical.
subclass of: chemical reaction pathway
type: Class

dimensional quantity
description: A dimensional quantity is a quantity that has an associated unit.
type: Class
subclass of: quantity
subclass of: Restriction
  on property: has unit
  some values from: unit of measurement

primary database key
subclass of: Restriction
  on property: is unique identifier for
  some values from: row
subclass of: Class
  complement of: Restriction
    on property: has value
    has value: null
subclass of: database key
type: Class
description: A primary database key is a database key that identifies every row of a table.

biopolymer
subclass of: organic polymer
subclass of: Restriction
  some values from: Class
    union of: lipid residue
    union of: amino acid residue
    union of: nucleotide residue
    union of: carbohydrate residue
  on property: has direct part
type: Class
description: A biopolymer is an organic polymer that are typically produced by the cells of living organisms.
equivalent class: Class
  intersection of: organic polymer
  intersection of: Restriction
    some values from: Class
      union of: lipid residue
      union of: amino acid residue
      union of: nucleotide residue
      union of: carbohydrate residue
    on property: has direct part

title
subclass of: label
type: Class
description: A title is a textual entity that summarily describes some entity.

addition reaction
description: An addition reaction is an organic reaction where two or more molecules combine to form a larger one. Addition reactions are limited to chemical compounds that have multiply-bonded atoms: * Molecules with carbon-carbon double bonds or triple bonds * Molecules with carbon - hetero double bonds like C=O or C=N
subclass of: organic reaction
type: Class

is related to
comment: 'is related to' is the top level relation in SIO
subset: core
subset: relations+
type: SymmetricProperty
type: ObjectProperty
range: entity
domain: entity
description: A is related to B iff there is some relation between A and B.

database row
subclass of: row
subclass of: Restriction
  on property: is proper part of
  some values from: database table
description: A database row is a row that is part of a database table.
type: Class

hypernym
subclass of: term variant
description: A hypernym is a term with a broader meaning.
equivalent class: Class
  intersection of: term variant
  intersection of: Restriction
    on property: is broader than
    some values from: term
type: Class

regulation of object quantity
subclass of: regulation of process
subclass of: Restriction
  on property: regulates
  some values from: quantity
description: regulation of a participant quantity is the regulation of a process in which the quantity of its partcipants is changed.
type: Class

is satisfied by
type: ObjectProperty
sub property of: is attribute of

cell
type: Class
description: A cell is a biological entity that is contained by a plasma membrane.
subclass of: biological entity

number of objects consumed
type: Class
description: number of objects consumed is a count of objects that were consumed in some process.
subclass of: count

polyline
alternative: polygonal chain, polygonal curve, polygonal path, piecewise linear curve
subclass of: Restriction
  on property: has component part
  min qualified cardinality: 2
  on class: line segment
subclass of: geometric entity
description: A polyline is a connected sequence of line segments.
type: Class

academic
description: An academic is an individual that participates in education and scholarship.
subclass of: person
type: Class

speed
type: Class
subclass of: rate of change
description: Speed is the rate of change of an object's position.

graph title
subclass of: title
subclass of: Restriction
  on property: is direct part of
  some values from: statistical graph
description: A graph title is a title that describes a graph.
type: Class
equivalent class: Class
  intersection of: title
  intersection of: Restriction
    on property: is direct part of
    some values from: statistical graph
example: Total value of permits increased slightly in December" in Graph 1 of http://tinyurl.com/opwnvm

gene-disease association linked with somatic causal mutation
subclass of: gene-disease association linked with causal mutation
description: A gene-variant disease association in which a somatic mutation in the gene/protein results in the development or maintenance of the disease, and it may not be passed on to offspring.
type: Class

computational entity
description: A computational entity is an information content entity operated on using some computational system.
type: Class
subclass of: information content entity

to change materially
description: to change appearance is the capability to change the material composition of an object.
type: Class
subclass of: to modify

to be inhibited
type: Class
subclass of: to be conformationally changed
description: to be inhibited is the capability to be modified in such a way that the conformational change leads to an decrease in another capability.

measured at
range: time measurement
subset: core
sub property of: exists at
description: measured at is a relation between a measurement value and the time measurement.
type: ObjectProperty

author role
subclass of: publishing role
type: Class
description: An author role is the role of an individual that creates a creative, written work.

decreased duration of process from increased regulation
description: decreased duration of process from increased regulation is a process in which the duration of the target process is decreased as a result of increased regulation.
subclass of: regulation of process duration
type: Class

polygon edge
subclass of: line segment
subclass of: Restriction
  on property: is part of
  some values from: polygon
subclass of: Restriction
  qualified cardinality: 2
  on class: polygon vertex
  on property: has component part
description: A polygon edge is a line segment joining two polygon vertices.
type: Class

is direct part of
subset: core
description: is direct part of is a relation between a specific part (at some level of granularity) and its whole.
type: ObjectProperty
sub property of: is proper part of

moderate
subclass of: intensity
type: Class
description: moderate is a qualitative intensity value that is more intense than mild, but less intense than strong.

numeric label
description: A numeric label is a number used as a label.
type: Class
subclass of: label

has part
example: a collection of cars has as a car as a part;a car has an engine as a part; a car has a piston as a part;
type: TransitiveProperty
type: ObjectProperty
type: ReflexiveProperty
sub property of: is location of
inverse of: is part of
description: has part is a transitive, reflexive and antisymmetric relation between a whole and itself or a whole and its part.

literature curation
subclass of: information processing
subclass of: Restriction
  on property: has output
  some values from: phrase
subclass of: Restriction
  some values from: document
  on property: has input
description: literature curation is the process of an agent selecting and extracting terms and phrases from a document.
type: Class

is broader than
equivalent to: http://www.w3.org/2004/02/skos/core#narrower
sub property of: is broader than (t)
type: ObjectProperty

interacting
type: Class
subclass of: Restriction
  on property: has participant
  some values from: object
subclass of: Class
  intersection of: Restriction
    on property: realizes
    min qualified cardinality: 2
    on class: to interact with
  intersection of: Restriction
    on property: realizes
    min qualified cardinality: 2
    on class: to be interacted with
subclass of: process
description: interacting is a process characterized by the interaction between two or more entities.
subset: core

some of the time
alternative: some of the time
type: Class
description: some refers to in the minority of occasions
subclass of: temporal qualifier

minimal value
type: Class
subclass of: Restriction
  on property: is attribute of
  some values from: collection
subclass of: quantity
alternative: min
description: A minimal value is smallest value of an attribute for the entities in the defined set.

measurement value
subclass of: number
subclass of: Class
  union of: Restriction
    on property: has value
    some values from: boolean
  union of: Restriction
    on property: has value
    some values from: dateTime
  union of: Restriction
    on property: has value
    some values from: double
  union of: Restriction
    some values from: float
    on property: has value
  union of: Restriction
    on property: has value
    some values from: integer
type: Class
description: A measurement value is a quantitative description that reflects the magnitude of some attribute.

coding sequence
description: a coding sequence is a sequence of nucleotides which encode a RNA or protein product..
type: Class
subclass of: symbolic sequence

medical history
description: A medical history is a record of the events of a recipient of medical care.
subclass of: history
type: Class

collection
subclass of: Restriction
  some values from: entity
  on property: has member
subclass of: set
type: Class
description: A collection is a set for which there exists at least one member, although any member need not to exist at any point in the collection's existence.

data collection device
description: A data collection device is a device that collects information about one or more objects.
type: Class
subclass of: device

maintenance of spatial extent of process
description: maintenance of spatial extent of process is a regulation of a process' spatial extent within some specified parameter.
type: Class
subclass of: regulation of process spatial extent

has creator
equivalent to: dc:creator
sub property of: has source
example: the iPhone was created by Apple Inc
alternative: was created by
alternative: is created by
domain: entity
type: ObjectProperty
inverse of: is creator of
description: has creator is a relation between an entity and that which created it.
range: entity

to be actively interacted with
subclass of: to be interacted with
subclass of: Restriction
  some values from: to actively interact with
  on property: is mutually related to
type: Class
description: to be actively interacted with is the capability to be manipulated by some device or agent.
disjoint with: to be passively interacted with

full
subclass of: containment quality
type: Class
description: full is the quality of contain an entity such that there is no more space for any additional entity.

table of contents
subclass of: document section
type: Class
description: The table of contents is a document section that lists all sections (and optionally subsections) in a sequential order along with their page number.

to negatively charge
subclass of: to ionize
type: Class
description: to negatively charge is the capability to add an electron or negatively charged ion to a chemical entity.

manuscript
type: Class
description: A manuscript is a document prior to publication.
subclass of: document

statistical graph
subclass of: chart
description: A statistical graph is a figure that displays the relationship among numeric data and/or mathematical functions.
type: Class
alternative: chart

tree diagram
type: Class
subclass of: directed acyclic graph
description: A tree diagram is a hierarchical network diagram in which a root vertex is connected to one or more other vertices through a directed edge, which in turn may be connected to other vertices.

is mutual role of
type: ObjectProperty
type: SymmetricProperty
sub property of: is mutually related to
description: a is mutual role of b if and only if the realization of role a necessarily causes the realization of role b.

cobalt atom
type: Class
subclass of: atom

letter
subclass of: document
description: A letter is a document that contains a personal communication from one part to another.
type: Class

niobium atom
type: Class
subclass of: atom

is unique identifier for
sub property of: is identifier for
type: FunctionalProperty
type: ObjectProperty
domain: unique identifier
description: is unique identifier for is a relation between an identifier and an entity that it uniquely identifies

to modify electronically
subclass of: to change energetically
description: to modify electronically is the capability to change the electronic properties of an object.
type: Class

molecular regulator
type: Class
description: A molecular regulator is a molecule that regulates the function of another chemical entity.
subclass of: molecule
subclass of: Restriction
  some values from: Class
    intersection of: to regulate
    intersection of: Restriction
      some values from: chemical entity
      on property: in relation to
  on property: has capability

curve segment
description: A curve segment is a part of a curve that consists of at least three points.
type: Class
subclass of: curve

ethnicity
type: Class
subclass of: biological quality
description: ethnicity is the biological quality of membership in a social group based on a common heritage.

to modify oxidation state of
description: to modify the oxidation state of is to change the number of electrons of a molecule, atom or ion.
subclass of: to modify electronically
type: Class

nucleotide residue
subclass of: nucleic acid part
description: A nucleotide residue is a part of a molecule that derives from a nucleotide.
type: Class

primary graph title
type: Class
description: A primary graph title is a primary title that describes a statistical graph.
example: "Total value of permits increased slightly in December" in Graph 1 of http://tinyurl.com/opwnvm
subclass of: Restriction
  on property: is direct part of
  some values from: statistical graph
subclass of: primary title

reference
subclass of: document component
description: A reference is a textual entity that describes a single source used in the preparation or development of the work.
type: Class

has time boundary
type: ObjectProperty
type: FunctionalProperty
sub property of: has boundary
range: time instant

to test a hypothesis
description: to test a hypothesis is the capability to evaluate the truth value of a proposition based on gathered evidence.
type: Class
subclass of: to examine

active transport
equivalent to: biopax:TransportWithBiochemicalReaction
type: Class
description: active transport is the movement of a substance across a membrane against its concentration gradient (from low to high concentration) and requires chemical energy.
subclass of: membrane transport

process
subclass of: entity
subclass of: Restriction
  all values from: process
  on property: has proper part
subclass of: Restriction
  on property: exists at
  all values from: time interval
subset: core
subset: process+
description: 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.
type: Class

derives into
sub property of: is causally related to
range: object
domain: object
type: ObjectProperty
type: TransitiveProperty
description: a derives to b if and only if a or some part thereof is consumed in the formation of b.

chemical interaction
subclass of: interacting
subclass of: Restriction
  some values from: chemical entity
  on property: has participant
description: A chemical interaction is a biochemical process in which chemical entities interact through some set of attractive forces.
type: Class
equivalent to: biopax:Interaction

major version number
description: A major version number is a version of a software that exhibits a significant change in functionalilty from a prior version.
subclass of: software version label
type: Class

is narrower than (t)
type: ObjectProperty
type: TransitiveProperty
equivalent to: http://www.w3.org/2004/02/skos/core#broaderTransitive
domain: term
sub property of: is similar to
range: term
description: A is narrower than B (t) iff for A is narrower than B.

regulator role
description: The role of a chemical entity that modifies the rate of reaction.
type: Class
subclass of: molecular entity role

logical operator
subclass of: mathematical entity
type: Class
description: A logical operator is a unary or binary relation to construct logical expressions.

premise
subclass of: proposition
type: Class
description: A premise is a proposition of an argument from which the conclusion is drawn.

product role
subclass of: Restriction
  some values from: product
  on property: is role of
subclass of: molecular entity role
type: Class
description: The role of a chemical entity present at the end of a chemical reaction.

arc
description: an arc is a closed segment of a differentiable curve.
type: Class
subclass of: curve

value axis
subclass of: axis
description: A value axis is an axis in which the position along the line is partioned into numeric values.
equivalent class: Class
  union of: left value axis
  union of: right value axis
  union of: top value axis
  union of: bottom value axis
comment: A value axis holds the properties of having a minimum and a maximum value, and is usually associated with tickmarks that indicate intervals along the axis.
type: Class
example: The value axis that ranges from 3.0 to 7.4 and corresponds to billions of dollars in Graph 1 of http://tinyurl.com/opwnvm

family history
description: family history is the systematic narrative and research of past events relating to a specific family, or specific families.
type: Class
subclass of: history

decreased molecular production from increased regulation
subclass of: regulation of molecular production
description: A process that decreases the frequency, rate or extent of process involved in the production of a molecule as a result of increased regulation.
type: Class

loathing
subclass of: disgust
description: loathing is an intense dislike or disgust.
type: Class

is product of
type: ObjectProperty
example: glucose-6-phosphate is the product of the hexokinase-mediated conversion of glucose to glucose-6-phosphate.
description: is product of is a relation between an entity and a process, where the entity is present at the end of the process as a result of a transformation in the process target.
sub property of: is output of
inverse of: has product
subset: sadi

to reduce the activation energy
disjoint with: to increase the activation energy
subclass of: to change the activation energy
description: to reduce the activation energy is to require a smaller amount of energy in order to form or break a chemical bond.
type: Class
alternative: to activate

mass
subclass of: spatial quantity
subclass of: Restriction
  some values from: material entity
  on property: is attribute of
description: mass is the quality of the amount of substance.
type: Class

to demagnify
subclass of: to change appearance
description: to demagnify is the capability to decrease the appearance of the size of an object.
type: Class

is correlated with
type: ObjectProperty
description: x is correlated with y when x holds a statistical relationship with y
sub property of: is associated with

is adjacent to
equivalent to: OBO_REL:adjacent_to
type: SymmetricProperty
type: ObjectProperty
subset: nlp
subset: core
sub property of: is spatiotemporally related to
description: A is adjacent to B iff there is a small, but non-zero distance between A and B

has product
sub property of: has output
description: has product is a relation between an process and an entity, where a new entity exists at the end of the process.
type: ObjectProperty
subset: sadi

modifying
subclass of: Restriction
  some values from: object
  on property: has output
subclass of: interacting
subclass of: Restriction
  on property: has target
  some values from: object
description: modifying is the process by which an entity gains or loses parts, qualities, roles, dispositions, functions, etc, but maintains their identity through these changes.
type: Class
alternative: modification

bibliography section
subclass of: document section
description: A bibliography section is a document section that is composed of a list of references used in the development of the work.
type: Class

scientific name
subclass of: name
description: A scientific name is a name given through scientific nomenclature.
type: Class

human
subclass of: multicellular organism
type: Class
description: A human is a primates of the family Hominidae and are characterized by having a large brain relative to body size, with a well developed neocortex, prefrontal cortex and temporal lobes, making them capable of abstract reasoning, language, introspection, problem solving and culture through social learning.

human population
subclass of: population
type: Class
description: A human population refers to a collection of human beings.

polymer
type: Class
subclass of: molecule
subclass of: Restriction
  some values from: monomer
  on property: has direct part
description: A polymer is a molecule composed of a connected set of monomeric residues.
equivalent class: Class
  intersection of: molecule
  intersection of: Restriction
    some values from: monomer
    on property: has direct part

histogram
type: Class
description: A histogram is a graphical representation of data which consists of tabular frequencies, shown as adjacent rectangles, over discrete intervals (bins) , with an area equal to the frequency of the observations in the interval.
subclass of: chart

regulatory authority
type: Class
description: A regulatory authority is an organization responsible for exercising regulatory or supervisory capacity in some area of human activity.
subclass of: organization

master's thesis
subclass of: thesis document
type: Class
description: A Master's thesis is a thesis prepared as a requirement for a Master's degree.

hurt
subclass of: negative emotion
description: hurt is an unpleasant feeling, emotion or sensation.
type: Class

is result of
sub property of: is causally related from
type: ObjectProperty

xenon atom
type: Class
subclass of: atom

to decode information
subclass of: to actively interact with
type: Class
description: the ability to reverse an encoding operation

right-handed helical
description: right-handed helical quality is the quality in which a clockwise screwing motion moves the helix away from the observed along the line of sight along the helix's axis.
subclass of: helicity
type: Class

spatial boundary
type: Class
subclass of: spatial region
description: A spatial boundary is the closure minus the interior of a subset of a topological space.

charge quality
type: Class
subclass of: chemical quality
equivalent class: Class
  union of: charged
  union of: uncharged
description: charge quality is the quality pertaining to electric charge.

statistical association
type: Class
description: A statistical association is any relationship between two measured quantities that renders them statistically dependent.
subclass of: association

abnormal
description: A quality that has a value that is outside normal or average.
type: Class
subclass of: normality

rubidium atom
subclass of: atom
type: Class

biomolecular structure descriptor
description: A biomolecular structure descriptor is structure description for organic compounds.
type: Class
subclass of: Restriction
  on property: is about
  some values from: organic molecule
subclass of: molecular structure descriptor

anatomical entity
equivalent class: Class
  intersection of: Class
    union of: material entity
    union of: spatial region
  intersection of: Restriction
    some values from: biological entity
    on property: is direct part of
subclass of: specialized object
type: Class
description: an anatomical entity is an object that is a structural part (material or immaterial) of a biological entity.

deoxyribonucleotide residue
subclass of: nucleotide residue
type: Class
disjoint with: ribonucleotide residue
description: A deoxyribonucleotide residue is a part of a molecule that derives from a deoxyribonucleotide.

to contain
type: Class
description: to contain is the capability to bound or constrain a physical entity in some site.
subclass of: to change spatially

class
description: A class is a collection of sets which can be unambiguously defined by a property that all its members share.
type: Class
subclass of: set

question
subclass of: sentence
type: Class
description: A question is a linguistic expression used to make a request for information.

textual entity
description: A textual entity is language entity that is manifested as a sequence of one or more distinct characters.
subclass of: language entity
type: Class

wave
type: Class
description: A wave is a physical entity that travels through space and time, consist of oscillations or vibrations and may be accompanied by the transfer of energy.
subclass of: heterogeneous substance

gratitude
alternative: appreciation
alternative: thankfullness
alternative: gratification
alternative: gratefulness
description: Gratitude, thankfulness, gratefulness, or appreciation is a feeling, emotion or attitude in acknowledgment of a benefit that one has received or will receive.
subclass of: positive emotion
type: Class

cylindrical coordinate system
description: A cylindrical coordinate system is a three-dimensional coordinate system that specifies point positions by the distance from a chosen reference axis, the direction from the axis relative to a chosen reference direction, and the distance from a chosen reference plane perpendicular to the axis.
type: Class
subclass of: coordinate system

chemical-disease association
subclass of: association
subclass of: Class
  intersection of: Restriction
    some values from: chemical entity
    on property: refers to
  intersection of: Restriction
    on property: refers to
    some values from: disease
description: A chemical-disease association is an association between a chemical and a disease.
type: Class

RDFS ontology
subclass of: ontology document
description: An RDFS ontology is an ontology that conforms to the syntax and semantics of the Resource Description Framework Schema (RDFS).
type: Class

verbal language
subclass of: language
type: Class
description: A verbal language is a language that uses sounds to communicate.

database entry
type: Class
subclass of: computational entity
subclass of: Restriction
  some values from: database
  on property: is proper part of
alternative: database record
description: A database entry is a single, implicitly structured data item in a table.

promethium atom
type: Class
subclass of: atom

bar graph
subclass of: statistical graph
example: Graphs 3,4,5 in http://tinyurl.com/opwnvm
description: A bar graph is a statistical graph with rectangular bars of lengths proportional to that value that they represent.
type: Class

URL
type: Class
alternative: Uniform Resource Locator
description: A Uniform Resource Locator or Universal Resource Locator (URL) is a specific character string that constitutes a reference to an Internet resource.
subclass of: Restriction
  some values from: anyURI
  on property: has value
subclass of: informational entity identifier

osmium atom
type: Class
subclass of: atom

phrase net diagram
type: Class
description: A phrase net diagram illustrates the relationship between different words used in a text.
subclass of: textual chart

hafnium atom
type: Class
subclass of: atom

3D cartesian coordinate
subclass of: Class
  intersection of: Restriction
    qualified cardinality: 1
    on property: has direct part
    on class: x cartesian coordinate
  intersection of: Restriction
    on class: y cartesian coordinate
    qualified cardinality: 1
    on property: has direct part
  intersection of: Restriction
    qualified cardinality: 1
    on class: z cartesian coordinate
    on property: has direct part
subclass of: cartesian coordinate
description: A 3D cartesian coordinate is a coordinate that is composed of an x, y and z coordinate.
type: Class

anion
subclass of: ion
subclass of: Restriction
  on property: has quality
  some values from: negative charge
equivalent class: Class
  intersection of: ion
  intersection of: Restriction
    some values from: negative charge
    on property: has quality
type: Class
description: An anion is an atom or molecule with a net negative electrical charge.

is directly connected to
type: ObjectProperty
type: SymmetricProperty
sub property of: is connected to
description: A is directly connected to B iff there exists a path direclty between A and B.

to supply energy
type: Class
subclass of: to change energetically
description: to supply energy is the capability to transfer energy from a source to a sink.

hypothetical
subclass of: existence quality
type: Class
description: hypothetical is the quality of an entity that is conjectured to exist.

sequence motif
disjoint with: structural motif
description: A sequence motif is a pattern of nucleotides in a DNA sequence or amino acids in a protein.
type: Class
subclass of: pattern

quantile
type: Class
subclass of: dimensionless quantity
description: A quantile is a quantity that divides the range of a probability distribution into continuous intervals with equal probabilities, or dividing the observations in a sample in the same way.

is implementation of
inverse of: has implementation
description: is implementation of is a relation between an information entity and a specification that it conforms to.
type: ObjectProperty
sub property of: is attribute of

is cited by
type: ObjectProperty
sub property of: is referenced by
description: is cited by is a relation from an object that is referred to by way of example, authority or proof.

time measurement
description: time measurement is a measurement value of the duration of some interval of time or a particular instant of time (against some frame of reference).
example: the duration of my life; the duration of a surgical procedure, the moment of death
type: Class
comment: Time intervals are specified as date/datetime ranges.
subclass of: dimensional quantity

social relation
subclass of: social entity
description: A social relation is a social entity that describes a relationship between two or more individuals or groups.
type: Class

has parameter
subset: sadi
sub property of: has input
type: ObjectProperty
description: has parameter is a relation between a process and an information content entity which modulates the behaviour of some participant.
inverse of: is parameter in

collection of 3d molecular structure models
type: Class
subclass of: Restriction
  some values from: 3d structure model
  on property: has member
subclass of: collection
description: A collection of 3D molecular structure models is just that.

medical procedure
subclass of: procedure
description: A medical procedure is a procedure to identify, examine, alleviate or eliminate an undesirable biological disease or disorder.
type: Class

compositional quality
type: Class
subclass of: object quality
description: composition quality is a quality that describes its composition or anatomy.

annoyance
type: Class
subclass of: negative emotion
description: Annoyance is an unpleasant emtion that is characterized by a abnormal or excessive sensitivity to some external stimulus.

has concretization
description: A has concretization B iff A is an informational entity and B is the a quality of some material entity.
inverse of: is concretization of
sub property of: is generically related with
type: ObjectProperty

molecular orbital
type: Class
subclass of: chemical quality
description: A molecular orbital (or MO) is a mathematical function describing the wave-like behavior of an electron in a molecule.

activator
type: Class
description: A molecular activator is a molecular regulator that realizes its disposition to conformationally change a target molecule and increase its functionality.
subclass of: molecular regulator

sign language
description: A sign language (also signed language) is a language that involves manual communication and body language to convey meaning. This can involve simultaneously combining hand shapes, orientation and movement of the hands, arms or body, and facial expressions to fluidly express a speaker's thoughts.
type: Class
subclass of: language

to increase the rate of formation
description: to increase the rate of formation is to regulate the rate of formation in a manner that increases this rate relative to a reference process.
subclass of: to regulate the rate of formation
type: Class

year
subclass of: time interval
type: Class
description: A year is a period of time taken by a planet to make one revolution around the sun.

mode
subclass of: centrality measure
description: A mode is the value that appears most often in a set of data.
type: Class

to supply electricity
type: Class
description: to supply electricity is the capability to transfer electricity from a source to a sink.
subclass of: to supply energy

is close match to
sub property of: is match to
equivalent to: http://www.w3.org/2004/02/skos/core#closeMatch
type: ObjectProperty
type: SymmetricProperty

technetium atom
subclass of: atom
type: Class

introduction section
type: Class
subclass of: document section
description: An introduction section is a document section that generally provides background, motivation and goals of the work.

concept
subclass of: term
description: A concept is term that refers to a generalization of a set of attributes or entities.
type: Class

silver atom
subclass of: atom
type: Class

carbon atom
subclass of: atom
type: Class

to serve as a template for protein synthesis
description: to serve as a template for protein synthesis is the capability of a chemical entity to provide the necessary information or scaffold by which a protein may be produced.
type: Class
subclass of: to serve as a template for molecular synthesis

neither satisfied or dissatisfied qualifier
subclass of: satisfaction qualifier
type: Class

abstract role
type: Class
subclass of: role
description: An abstract role is a role whose basis lies in spatial/temporal or comparative relations.

namespace label
subclass of: label
type: Class
description: A namespace label is a short name for a namespace.

monosaccharide
type: Class
description: A monosaccharide is an organic molecule that consists of a single polyhydroxy aldehyde or ketone group.
subclass of: organic molecule

passion
subclass of: desire
type: Class
description: passion is the intense desire for something.

weak submolecular component
type: Class
disjoint with: strong submolecular component
description: A weak submolecular component is a submolecular component that weakly connects submolecular components.
subclass of: submolecular entity

word end position
type: Class
description: word end position is the position of the last character in a word as an offset from the first character of the text in which it is found.
subclass of: text span end position

statement of consequence
description: a statement of consequence is a statement concerning the result or effect of an action or condition.
subclass of: statement
type: Class

never
alternative: none of the time
description: never refers to in none of the occasions.
subclass of: temporal qualifier
type: Class

measurement scale
type: Class
subclass of: functional specification
description: A measurement scale is a functional specification that specifies an allowed range of categories or values.

curium atom
subclass of: atom
type: Class

second
type: Class
subclass of: time interval
description: A second (symbol: s) is the base unit of time in the International System of Units (SI) and is the second division of the hour by sixty, the first division by 60 being the minute.

has property
type: InverseFunctionalProperty
type: ObjectProperty
description: has property is a relation between an entity and the quality, capability or role that it and it alone bears.
example: michel's hair has the quality of being brown in colour.
sub property of: has attribute
inverse of: is property of

electrophilic addition reaction
subclass of: polar addition reaction
description: An electrophilic addition reaction is a polar addition reaction where a pi bond is removed by the creation of two new covalent bonds.
type: Class

chemical element
description: A chemical element is a (effectively) homogeneous substance composed of one type of atom.
subclass of: Restriction
  on property: has direct part
  all values from: atom
subclass of: homogeneous substance
type: Class

to change the activation energy
description: to change the activation energy is to change the amount of energy required to form or break a chemical bond.
type: Class
subclass of: to change energetically

newspaper
type: Class
equivalent to: http://purl.org/ontology/bibo/Newspaper
subclass of: periodical
description: A newspaper is a periodical publication containing news regarding current events, informative articles, diverse features, editorials, and advertising.

is creator of
sub property of: is source of
type: ObjectProperty
description: is creator of is a relation between a creator and an entity..
alternative: is created by

stereoisomer
type: Class
subclass of: isomer
description: A stereoisomer is an isomer in which the atomic connectivity is the same, but differs in its spatial arrangement of atoms.

fictional
description: fictional is the quality of an entity that exists only in a creative work of fiction.
subclass of: hypothetical
type: Class

is denoted by
type: ObjectProperty
sub property of: is represented by

chemical-chemical association
subclass of: association
subclass of: Restriction
  on class: chemical entity
  qualified cardinality: 2
  on property: refers to
type: Class
description: A chemical-chemical association is an association between two chemical entities.

is supporting evidence for
type: ObjectProperty
sub property of: is evidence for

is similar to
type: SymmetricProperty
type: ObjectProperty
sub property of: is variant of
description: is similar to is a relation between two entities that share one or more features.

minor tick mark
type: Class
description: A minor tick mark is a tick mark that indicates the position of a specific numeric value but has no adjacent value label, or is one of a pair of tick marks that delineates the boundary of a categorical value but has no adjacent category label on the categorical axis.
subclass of: tick mark

has component part
example: a human has blood as a component part
type: ObjectProperty
sub property of: has direct part
description: has component part is a relation between a whole and a component part where the component is instrinsic to the whole, and loss of the part would change the kind that it is.

cation
description: An anion is an atom or molecule with a net positive electrical charge.
subclass of: ion
subclass of: Restriction
  on property: has quality
  some values from: positive charge
type: Class
equivalent class: Class
  intersection of: ion
  intersection of: Restriction
    on property: has quality
    some values from: positive charge

object
type: Class
description: An object is an entity that is wholly identifiable at any instant of time during which it exists.
subclass of: entity
subclass of: Restriction
  on property: has proper part
  all values from: object
subset: core

process number
type: Class
description: process number is a number associated with a process that denotes its ordinal position in a set of processes.
subclass of: ordinal position

intersection
type: Class
subclass of: list
description: An intersection is a list of only the values of an attribute for the entities in the defined set where all entities have that value.

imaginary number
type: Class
subclass of: complex number
example: 5i is an imaginary number, and its square is -25.
description: An imaginary number is a complex number whose real part is zero e.g. 0 + bi, and is expressed as a multiple of the square root of -1.
disjoint with: real number

low barrier hydrogen bond
subclass of: hydrogen bond
description: A low barrier hydrogen bond is a shorter, stronger hydrogen bond that is formed between both heteroatoms.
type: Class

common name
description: A common name is a name that is commonly used.
type: Class
subclass of: name

comparing
type: Class
description: comparing is the process of examining a set of objects and determining their equality or inequality based on one or more features.
subclass of: interacting
subclass of: Class
  intersection of: Restriction
    some values from: to be compared
    on property: realizes
  intersection of: Restriction
    some values from: to compare
    on property: realizes
alternative: comparison

holmium atom
subclass of: atom
type: Class

written language
subclass of: language
description: written language is a language that is communicated through a writing system.
type: Class

nmr device
equivalent to: http://purl.obolibrary.org/obo/OBI_0000566
description: A nuclear magnetic resonance (NMR) device is a device that applies a magnetic field to perturb nuclei with an odd number of protons and/or of neutrons in order to hav them absort and re-emit electromagnetic radiation.
alternative: nuclear magnetic resonance device
type: Class
subclass of: data collection device

nucleophilic addition reaction
subclass of: polar addition reaction
description: A nucleophilic addition reaction is an addition reaction where a pi bond is removed by the creation of two new covalent bonds by the addition from a nucleophile.
type: Class

website
type: Class
subclass of: collection of documents
subclass of: Restriction
  on property: has direct part
  some values from: web page
description: A website is a collection of documents published on the World Wide Web.

materials section
type: Class
subclass of: document section
description: The materials section is a document section containing a description of the materials used in the study.

geometric entity
subclass of: information content entity
type: Class
description: A geometric entity is an information content entity that pertains to the structure and topology of a space.
subset: geometry+

sequence profile
subclass of: pattern
description: A sequence profile is provides the preference for a character at each position of an abstracted sequence.
type: Class

to passively interact with
description: to passively interact with is the capability to interact with another entity in a way that does not require physical contact.
type: Class
subclass of: to interact with

RNA transcript
description: An RNA transcript is an RNA molecule that is produced from transcription of a nucleic acid template.
subclass of: ribonucleic acid
subclass of: Restriction
  some values from: Class
    union of: deoxyribonucleic acid
    union of: Restriction
      on property: is part of
      some values from: deoxyribonucleic acid
  on property: is transcribed from
type: Class

allotrope
description: An allotrope is a structural variant of a chemical element.
subclass of: chemical element
type: Class

geographic heatmap
type: Class
description: A geographic heatmap is a graphical representation of data over a geographic region where individual values are represented as colors.
subclass of: heatmap

experimental protocol
type: Class
description: An experimental protocol is an action specification with respect to the design and implementation of experiments. In addition to providing a detailed set of procedures and lists of required equipment and instruments, experimental protocols often include information on safety precautions, the calculation of results and reporting standards, including statistical analysis and rules for predefining and documenting excluded data to avoid bias.
subclass of: action specification

fear
subclass of: apprehension
description: Fear is a negative emotion induced by a perceived threat that induces one to hide or move quickly away from the location of the perceived threat.
type: Class

mereological quality
subclass of: object quality
type: Class
description: a mereological quality is a quality of an entity vis-a-vis containment or parthood

zinc atom
subclass of: atom
type: Class

mild
subclass of: intensity
description: mild is a qualitative intensity value that is more intense than weak, but less intense than moderate.
type: Class

association
subclass of: Restriction
  on property: refers to
  min qualified cardinality: 2
  on class: entity
subclass of: mathematical entity
type: Class
description: An association is a relationship between two or more entities derived by some informational analysis.

is causally related from
type: ObjectProperty
description: a is causally related from b iff there is a causal chain of events from b to a
subset: core
sub property of: is causally related with

einsteinium atom
type: Class
subclass of: atom

is participant in
inverse of: has participant
example: a car is a participant in a car race; glucose is a participant in glycolysis
description: is participant in is a relation that describes the participation of the subject in the (processual) object.
sub property of: is spatiotemporally related to
range: process
type: ObjectProperty

indifference
description: indifference is an emotion characterized by lack of interest, concern, or sympathy.
subclass of: emotion
subclass of: Class
  intersection of: Class
    complement of: Restriction
      some values from: positive
      on property: has quality
  intersection of: Class
    complement of: Restriction
      some values from: negative
      on property: has quality
type: Class

transporting
subclass of: Class
  intersection of: Restriction
    on property: realizes
    some values from: to transport
  intersection of: Restriction
    on property: realizes
    some values from: to be transported
subclass of: interacting
type: Class
description: transporting is a process in which one object physically moves another object from one location to another.

time interval
subclass of: time measurement
description: A time internval is a contiguous temporal region having some duration.
type: Class

exists at
description: exists at is a relation between an entity and a time measurement.
type: ObjectProperty
sub property of: is spatiotemporally related to
range: time measurement
subset: core

empty
description: empty is the quality of not containing some thing
subclass of: containment quality
type: Class

object relational quality
subclass of: object quality
type: Class
description: object relational quality refers to a quality in relation to one or more objects

is translated into
inverse of: is translated from
example: RNA is translated into Protein
example: a relation between two information content entities in which one is translated into (a completely different kind of entity) another through some process.
type: ObjectProperty
sub property of: encodes

legend
example: The colored line segments and the adjacent textual descriptions in Graph 1 of http://tinyurl.com/opwnvm
description: A legend is a part of a figure that associates textual descriptions with symbols pertaining to plotted entities.
subclass of: figure part
type: Class

experiment
description: An experiment is an investigation that has the goal of verifying, falsifying, or establishing the validity of a hypothesis.
subclass of: investigation
type: Class
alternative: study

salt
description: a salt is a heterogeneous substance that is coposed of positively charged ions (cations) and negatively charged ions (anions) held together by electrostatic forces.
type: Class
subclass of: heterogeneous substance

graduate student advisor role
description: A graduate student advisor role is the role of an individual employed at an academic organization that is involved in advising graduate students.
type: Class
subclass of: student advisor role

diagnostic test
type: Class
subclass of: medical procedure
alternative: clinical laboratory test
description: A diagnostic test is a procedure performed to confirm, or determine the presence of disease in an individual suspected of having the disease, usually following the report of symptoms, or based on the results of other medical tests.

sequence start position
type: Class
subclass of: start position
subclass of: sequence element position
description: A sequence start position is the start position for a sequence of characters.

increased molecular production from increased regulation
type: Class
description: A process that increases the frequency, rate or extent of process involved in the production of a molecule as a result of increased regulation.
subclass of: regulation of molecular production

transfer RNA (tRNA)
subclass of: non-protein coding RNA (ncRNA)
type: Class
description: A transfer RNA (tRNA) is an RNA molecule that aids in the translation of a messenger RNA (mRNA) to produce a protein product.
alternative: tRNA

effective dose
subclass of: dose
description: effective dose is the amount of a substance required to produce an effect on a predefined percentage of a population.
type: Class

longitude
description: Longitude is a geographic position that refers to the angle east or west of a reference meridian between the two geographical poles to another meridian that passes through an arbitrary point.
type: Class
disjoint with: latitude
subclass of: geographic position

pleasure
subclass of: happiness
type: Class
description: pleasure is an emotion of happy satisfaction and enjoyment.

small nucleolar RNA (snoRNA)
subclass of: non-protein coding RNA (ncRNA)
type: Class
alternative: snoRNA
description: A small nucleolar RNA (snoRNA) is a small RNA that are associated with the eukaryotic nucleus as components of small nucleolar ribonucleoproteins.

solute
description: A solute is a substance that becomes dissolved in a solvent.
subclass of: liquid solution component
type: Class

is parameter in
sub property of: is input in
description: is parameter in is a relation between a data item and some data transformation process.
type: ObjectProperty

IP number
alternative: IP address
subclass of: informational entity identifier
description: an IP number is an number to connect to a device on the internet.
type: Class

regulating
equivalent class: Class
  union of: process maintenance
  union of: process up-regulation
  union of: process down-regulation
alternative: regulation
subclass of: interacting
description: regulating is a process that modulates the attributes of an object or process.
type: Class

has start time
inverse of: is start time of
type: FunctionalProperty
type: ObjectProperty
sub property of: has time boundary
range: time instant

dependent variable
description: A dependent variable is one whose value changes as a consequence of changes in other values in the system.
subclass of: variable
type: Class

member count
subclass of: count
description: A count of the instances of a class or members in a collection.
type: Class

is output of
example: glucose-6-phosphate and ADP are outputs in the hexokinase-mediated conversion of glucose to glucose-6-phosphate.
subset: sadi
type: ObjectProperty
description: is output of is a relation between an entity and a process, where the entity is present at the end of the process.
sub property of: is participant in

chemical transport
description: chemical transport is the directed movement of a chemical entity by some agent (e.g. transporter).
equivalent to: biopax:Transport
type: Class
subclass of: transporting
subclass of: Restriction
  some values from: chemical entity
  on property: has participant

antimony atom
subclass of: atom
type: Class

chemical destruction
description: chemical destruction is destruction of a chemical entity to its chemical constituents through one ormore chemical interactions or reactions.
type: Class
subclass of: Restriction
  some values from: chemical entity
  on property: has target
subclass of: destroying

endpoint
type: Class
subclass of: terminal point
description: An endpoint is a terminal point that is the last of an ordered pair of points.

rage
description: Rage is a feeling of intense anger that is associated with the Fight-or-flight response.
type: Class
subclass of: anger

thorium atom
type: Class
subclass of: atom

francium atom
type: Class
subclass of: atom

family
description: A group of people affiliated by consanguinity, affinity, or co-residence.
type: Class
subclass of: collective

heterogeneous
subclass of: compositional quality
type: Class
description: homogeneous is a quality that describes the varied composition of an object.

transfer RNA (tRNA) gene
description: A transfer RNA (tRNA) gene is a gene that codes for a tRNA used in the translation of a messenger RNA (mRNA) to produce a protein product.
type: Class
alternative: tRNA gene
alternative: solube RNA (sRNA) gene
subclass of: non-protein coding RNA (ncRNA) gene
subclass of: Restriction
  on property: encodes
  some values from: transfer RNA (tRNA)
equivalent to: http://purl.obolibrary.org/obo/SO_0001272

ionsdaleite
description: ionsdaleite is a hexagonal allotrope of the carbon allotrope diamond.
type: Class
subclass of: carbon allotrope

intervention study
type: Class
description: An intervention study has the objective of improving the condition of an individual or a group of individuals, and demonstrates the magnitude of that capability by comparing it to a control group.
subclass of: experiment

negation (not)
subclass of: logical operator
description: NOT is a logical operator in that has the value true if its operand is false.
type: Class

capability
subset: capability+
subset: core
subclass of: realizable entity
subclass of: Restriction
  on property: is attribute of
  some values from: Restriction
    some values from: process
    on property: is agent in
subclass of: Restriction
  on property: has trigger
  all values from: process
subclass of: Restriction
  on property: has basis
  some values from: quality
description: A capability is a realizable entity whose basis lies in one or more parts or qualities and reflects possibility of an entity to behave in a specified way under certain conditions or in response to a certain stimulus (trigger).
type: Class

has basis
range: quality
description: has basis is a relation between a realizable entity and the quality that forms the basis for it.
example: the solubility of salt (the disposition) is based on the molecular structure of NaCl (the quality) that allows the polarized water-molecules (the trigger) to break the ion bonds (the realization).
sub property of: has attribute
type: ObjectProperty
inverse of: is base for
domain: realizable entity

is covalently connected to (transitive)
sub property of: is connected to
domain: atom
type: SymmetricProperty
type: TransitiveProperty
type: ObjectProperty
range: atom

double stranded DNA
type: Class
subclass of: Restriction
  on class: deoxyribonucleic acid
  on property: has proper part
  qualified cardinality: 2
subclass of: double stranded nucleic acid
disjoint with: double stranded RNA
description: double stranded nucleic acid is a molecular complex composed of two weakly connected deoxyribonucleic acids.

quantity modifier
subclass of: informational quality
type: Class

biological entity
description: A biological entity is a heterogeneous substance that contains genomic material or is the product of a biological process.
subclass of: Restriction
  some values from: organism
  on property: is part of
subclass of: heterogeneous substance
type: Class
subset: chemical-

cell line
subclass of: biological entity
description: A cell line is a collection of genetically identifical cells.
type: Class

realizable entity
subclass of: attribute
subclass of: Restriction
  on property: in relation to
  all values from: entity
subclass of: Restriction
  on property: is realizable property of
  some values from: entity
type: Class
description: A realizable entity is an attribute that is exhibited under some condition and is realized in some process.
subset: core

semantic web service
subclass of: web service
type: Class
description: a semantic web service is a web service that provides a formal, machine understanble description of its functionality.

count
type: Class
description: The number of elements of a finite set of objects.
subclass of: dimensionless quantity

perception
type: Class
description: perception is the organization, identification, and interpretation of sensory information in order to fabricate a mental representation through the process of transduction, which sensors in the body transform signals from the environment into encoded neural signals.
subclass of: observing

is identical to
type: SymmetricProperty
type: ObjectProperty
sub property of: is comparable to
description: is identical to is a relation between two objects that are conceptually the same notwithstanding provenance or other non-intrinsic attributes.

gene-disease association linked with somatic modifying mutation
description: A gene-variant disease association in which a somatic mutation in the gene modifies the clinical presentation of the disease, and it may not be passed on to offspring.
type: Class
subclass of: gene-disease association linked with modifying mutation

is exact match to
equivalent to: http://www.w3.org/2004/02/skos/core#exactMatch
type: SymmetricProperty
type: ObjectProperty
sub property of: is match to

versioned dataset
subclass of: Restriction
  on property: has attribute
  some values from: version label
subclass of: dataset
type: Class
description: a versioned dataset is a dataset with a particular release date or release number.

regulation of molecular production
description: A process that modulates the frequency, rate or extent of process involved in the production of a molecule.
subclass of: regulation of molecular quantity
type: Class

ribosomal RNA gene
equivalent to: http://purl.obolibrary.org/obo/SO_0001637
type: Class
subclass of: non-protein coding RNA (ncRNA) gene
alternative: rRNA gene
description: A ribosomal RNA gene is a gene that codes for a ribosomal RNA molecule.

collection item
subclass of: Restriction
  on property: is member of
  some values from: collection
subclass of: set item
type: Class
description: a collection item is an item in a collection.

in relation to
subset: core
sub property of: refers to
inverse of: in relation from
description: in relation to is a comparative relation to indicate that the instance of the class holding the relation exists in relation to another entity.
type: ObjectProperty

academic organization
subclass of: organization
type: Class
description: An academic organization is a lawfully recognized organization that confers diplomas, degrees and other forms of recognition of academic achievement.

gene symbol
subclass of: scientific name
description: a gene symbol is a short name assigned to a gene.
type: Class

rhodium atom
type: Class
subclass of: atom

is lesser than
type: ObjectProperty
type: TransitiveProperty
description: is lesser than to is a comparison relation between two quantities in which the first has a value smaller than the second.
sub property of: is lesser than or equal to

namespace
subclass of: Restriction
  on property: has member
  all values from: identifier
subclass of: computational entity
type: Class
description: A namespace is an informational entity that defines a logical container for a set of symbols or identifiers.

x cartesian coordinate
type: Class
subclass of: cartesian coordinate
description: An x cartesian coordinate is the coordinate of an object onto the x-axis of a cartesian coordinate system.

material boundary
subclass of: spatial boundary
subclass of: Restriction
  some values from: material entity
  on property: is boundary of
type: Class
example: the external surface of the window; the surface of the p52 protein
description: A material boundary is the boundary of a material entity which exists as a lower dimensional entity at exactly the location where its parts no longer extend into space. Every material entity has a boundary, and a boundary is the boundary of exactly 1 material entity.

periodical
type: Class
subclass of: collection of documents
equivalent to: http://purl.org/ontology/bibo/Periodical
description: A periodical is a publication that appears on a regular schedule.

integer scale
type: Class
subclass of: numeric scale
subclass of: Restriction
  on property: specifies
  some values from: Class
    intersection of: entity
    intersection of: Restriction
      some values from: integer
      on property: has value
description: An integer scale of measurement is one that only specifies integer values.

replica quality
description: replica quality is the quality of an object that is an exact copy of another object.
type: Class
subclass of: object relational quality

drug regulatory authority
type: Class
subclass of: regulatory authority
description: A drug regulatory authority is a regulatory authority which acts to control what substances may be used to treat individuals.

pharmacodynamic pathway
type: Class
subclass of: regulatory pathway
description: a pharmacodynamic pathay is a regulatory pathway in which a drug molecule regulates the activity of one or more components organized in a pathway.

sequence element position
type: Class
subclass of: linear position
description: A sequence element position is the position of an element of a linear sequence.

protein-protein association
subclass of: Restriction
  on class: protein
  qualified cardinality: 2
  on property: refers to
subclass of: association
comment: A protein-protein association is an association between two proteins.
type: Class

data storage device
type: Class
subclass of: device
description: A data storage device is a device that is capable of storing information.

despair
type: Class
subclass of: sadness
description: despair is depression, hopelessness or lack of hope.

rectangle
subclass of: quadrilateral
description: A rectangle is a quadrilateral in which one pair of line segments are parallel and the other pair are perpendicular to the first pair.
type: Class

polar coordinate system
subclass of: coordinate system
type: Class
description: A polar coordinate system is a two-dimensional coordinate system in which each point on a plane is determined by a distance from a fixed point and an angle from a fixed direction.

polar
description: polar is the quality of having a dipole.
disjoint with: non-polar
type: Class
subclass of: polar quality

geographic region
type: Class
subclass of: spatial region
example: The spatial region occupied by the province of ontario; the spatial region occupied by a lake.
description: A geographic region is a spatial region whose boundaries are typically defined against some material frame of reference (like the earth).

design specification
type: Class
subclass of: functional specification
description: A design specification is a specification that provides precise and explicit information about the requirements for a product design.

z-axis
subclass of: Cartesian coordinate axis
type: Class
description: A z-axis is a Cartesian coordinate axis that is spatially oriented normal to the plane formed by the x- and y-axes.

scatterplot
type: Class
subclass of: statistical graph
alternative: scatter chart
alternative: scatter diagram
alternative: scatter graph
description: A scatterplot is a statistical graph which uses Cartesian coordinates to display values for two variables for a set of data. The data is displayed as a collection of points, each having the value of one variable determining the position on the horizontal axis and the value of the other variable determining the position on the vertical axis.

charged
disjoint with: uncharged
subclass of: charge quality
description: The quality of having a charge.
type: Class

surrounds
sub property of: contains
type: ObjectProperty
description: A 'surrounds' B iff the A 'contains' B and A 'is adjacent to' B or A 'is directly connected to' B.

structural motif
description: A structural motif is a pattern in a structure formed by a spatial arrangement of objects (e.g. atoms).
type: Class
subclass of: pattern

professor role
subclass of: Restriction
  on property: is role of
  some values from: professor
subclass of: academic role
subclass of: Restriction
  on property: is mutual role of
  some values from: student role
type: Class
description: A professor role is the role of an individual that is involved in teaching of students (undergraduate and/or graduate) at a post-secondary academic institution.

biopolymer sequence
subclass of: Restriction
  on property: represents
  some values from: Class
    intersection of: molecular structure
    intersection of: Restriction
      some values from: biopolymer
      on property: is attribute of
subclass of: symbolic sequence
subclass of: Restriction
  on property: describes
  some values from: biopolymer
subclass of: Restriction
  some values from: string
  on property: has value
description: A sequence is a primary structure descriptor in which each of the letters in the string represents a monomeric unit (residue) in which adjacent letters represent the connectivity between the monomeric units.
type: Class

amorphous carbon
type: Class
subclass of: carbon allotrope
description: amorphous carbon is an allotrope of carbon that does not have any crystalline structure. As with all glassy materials, some short-range order can be observed, but there is no long-range pattern of atomic positions.

software version label
type: Class
example: major.minor[.build[.revision]]
description: A software version label is a version label for a piece of software.
subclass of: Restriction
  some values from: software entity
  on property: is identifier for
subclass of: version label

hgvs notation
type: Class
description: The HGVS (human genome variation society) notation is a notation to specify a sequence variation in dna, rna, proteins, and other biomolecules.
subclass of: sequence variation notation

aggregated carbon nanorods
type: Class
description: aggregate of carbon nanorods is an allotrope of carbon considered to be the least compressible material known, as measured by its isothermal bulk modulus; aggregated diamond nanorods have a modulus of 491 gigapascals (GPa), while a conventional diamond has a modulus of 442 GPa. ADNRs are also 0.3% denser than regular diamond.
subclass of: carbon allotrope

publisher role
subclass of: publishing role
description: A publisher role is the role of an individual that prepares and issues creative works.
type: Class

log likelihood
description: Log likelihood is the natural logarithm of the likelihood function
type: Class
subclass of: likelihood

envy
description: envy is an emotion that occurs when a person lacks another's (perceived) superior quality, achievement or possession and wishes that the other lacked it.
type: Class
subclass of: negative emotion

darmstadtium atom
type: Class
subclass of: atom

gene-disease association linked with causal mutation
type: Class
description: A gene-variant disease association in which a mutation in the gene/protein results in the development or maintenance of the disease.
subclass of: gene-disease association linked with genetic variation

OWL ontology
type: Class
subclass of: ontology document
description: An OWL ontology is an ontology as specified by the W3C OWL specification.

is time boundary of
inverse of: has time boundary
sub property of: is boundary of
domain: time instant
type: ObjectProperty

clause
description: A clause consists of a subject and a predicate.
type: Class
subclass of: sentence

is causally related to
description: a is causally related to b iff there is a causal chain of events from a to b
sub property of: is causally related with
type: ObjectProperty
inverse of: is causally related from

width
type: Class
subclass of: 1D extent quantity
description: width is the shorter dimensional extent perpendicular to a 2D projection of the object.

disgust
description: Disgust is a feeling of revulsion or profound disapproval aroused by something unpleasant or offensive.
type: Class
subclass of: hostility

pathway
description: A pathway is an effective specification that outlines a set of actions that forms a way to achieve an objective.
subclass of: action specification
alternative: biological pathway
type: Class

replicate
subclass of: collection item
subclass of: Restriction
  on property: has role
  some values from: Class
    intersection of: replicate role
    intersection of: Restriction
      some values from: object
      on property: in relation to
description: a replicate is an object that is a facsimile, reproduction, or copy of another item.
type: Class

increase in number of objects produced
subclass of: difference in number of objects produced
type: Class
description: An increase in the number of objects produced is the positive value of a difference in number of objects produced.

ongoing
description: ongoing is the status of a process that is not yet complete.
subclass of: process status
type: Class

chemical structure
description: chemical structure is the structure of a chemical entity in terms of its molecular geometry and electronic structure.
type: Class
subclass of: structure

positive nucleic acid strand
description: The positive nucleic acid strand refers to the strand that is to be read 5' to 3'.
type: Class
subclass of: nucleic acid strand
alternative: forward strand

mature mRNA
subclass of: Restriction
  some values from: RNA transcript
  on property: is derived from
subclass of: messenger RNA
subclass of: Class
  complement of: Restriction
    some values from: RNA transcript
    on property: derives into
subclass of: Class
  complement of: Restriction
    on property: has proper part
    some values from: intron
subclass of: Restriction
  on property: is translated into
  some values from: protein
description: A mature RNA is a ribonucleic acid that contains an untranslated region (UTR) and protein coding sequence and lacks introns.
type: Class

angst
description: angst is the intense feeling of apprehension, anxiety or inner turmoil.
subclass of: anxiety
type: Class

binding site
subclass of: molecular site
type: Class
description: A binding site is a molecular site which when occupied with particular ligands leads to structural transformations that initiatiate new moelcular processes.

negative nucleic acid strand
description: The negative nucleic acid strand is the strand that is that is complimentary to the forward strand and appears from 3' to 5'.
type: Class
subclass of: nucleic acid strand
alternative: reverse strand

is quality of
type: ObjectProperty
sub property of: is property of
domain: quality
description: is quality of is a relation between a quality and the entity that it is a property of.

partial charge
description: The quality of having a charge that is not a full multiple of 1 unit charge.
equivalent class: Class
  union of: partial positive charge
  union of: partial negative charge
type: Class
subclass of: charged

is boundary of
description: is boundary of is a mereological relation between a boundary located at the periphery of a whole.
sub property of: is proper part of
type: ObjectProperty

edge
description: an edge is a line connecting two graph vertices.
type: Class
subclass of: line

happiness
description: happiness is an emotion characterized by positive or pleasant emotions ranging from contentment to intense joy.
subclass of: positive emotion
type: Class

maternally transmitted
subclass of: parental transmission
type: Class
disjoint with: paternally transmitted
description: maternally transmitted is the quality of a biological organism in which the (genetic) material is transmitted from the maternal line.

to serve as a host
subclass of: Restriction
  some values from: host
  on property: is capability of
subclass of: to serve as
description: to serve as host is the capability to act in a manner that provides hospitality, serves to harbour an organism in or on itself.
type: Class

symbol
subclass of: Restriction
  on property: represents
  some values from: entity
subclass of: Restriction
  on property: is about
  some values from: entity
subclass of: representation
type: Class
description: A symbol is a proposition about what an entity represents.

homocyclic ring
subclass of: ring
type: Class
description: A homocyclic ring is a ring where the atoms are of a single type.

ligand
equivalent class: Class
  intersection of: molecule
  intersection of: Class
    intersection of: Restriction
      on property: is direct part of
      some values from: molecular complex
    intersection of: Restriction
      on property: is weakly interacting with
      some values from: molecule
subclass of: Restriction
  some values from: molecular complex
  on property: is direct part of
subclass of: molecule
subclass of: Restriction
  on property: is weakly interacting with
  some values from: molecule
description: A ligand is a molecule that is part of a complex by weakly interacting with another molecule.
type: Class

radon atom
type: Class
subclass of: atom

spatial specification
type: Class
subclass of: functional specification
description: A specification for spatial location is an effective specification towards representation spatial position or spatial data.

biological reproduction
description: biological reproduction is the biological process by which one or more biological organisms are produced from their "parents".
type: Class
subclass of: reproducing

top value axis
subclass of: value axis
description: A top value axis is a value axis that is spatially positioned to the top of the plot area.
type: Class

toxin role
type: Class
description: A toxin role is a toxic role of a chemical substance that is poisonous and is produced by an organism.
subclass of: poison role

primer
description: A primer is a nucleic acid that enables the synthesis of a complement strand of DNA by binding to it and acting as a point of transcription initiation.
type: Class
subclass of: Class
  intersection of: nucleic acid
  intersection of: Restriction
    some values from: Class
      intersection of: to bind to
      intersection of: Restriction
        on property: has capability
        some values from: to serve as a primer for DNA synthesis
      intersection of: Restriction
        some values from: Class
        on property: in relation to
    on property: has capability

is connected to
sub property of: is spatiotemporally related to
subset: core
subset: nlp
type: SymmetricProperty
type: ObjectProperty
type: TransitiveProperty
description: A is connected to B iff there exists a fiat, material or temporal path between A and B. [S][T]
alternative: interacts with

information translation
type: Class
subclass of: information processing

is last part of
type: ObjectProperty
sub property of: is ordered part of
description: is last part of is a proper part relation in which the part is the last of a set of linearly ordered parts resulting from the projection of the whole on a linear coordinate system.

assay
subclass of: Restriction
  on property: has output
  some values from: Class
    intersection of: Class
      union of: measurement value
      union of: existence quality
    intersection of: Restriction
      some values from: entity
      on property: is attribute of
subclass of: procedure
subclass of: Restriction
  on property: has input
  some values from: object
type: Class
alternative: bioassay
description: An assay is an investigative (analytic) procedure in laboratory medicine, pharmacology, environmental biology, and molecular biology for qualitatively assessing or quantitatively measuring the presence or amount or the functional activity of a target entity (the analyte) which can be a drug or biochemical substance or a cell in an organism or organic sample.

single nucleotide polymorphism
alternative: SNV
alternative: SNP
alternative: single nucleotide variation
subclass of: nucleotide residue
type: Class
description: a single nucleotide variation (SNV) is a nucleotide residue that is a variant compared to some reference nucleic acid sequence.

catalog
description: A catalog is a systemic collection of items of the same type.
subclass of: collection
alternative: registry
type: Class

homozygous
subclass of: zygosity
type: Class
description: homozygous is the quality of a biological organism in which there are two identical alleles at a given locus.

Gantt chart
description: A Gantt chart is a bar chart that illustrates a project schedule.
subclass of: chart
type: Class

biological quality
type: Class
subclass of: object quality
description: A biological quality is a quality held by a biological entity.

start point
subclass of: terminal point
type: Class
description: A start point is a terminal point which is the first of an ordered pair of points.

linear position
type: Class
description: A linear position is the position of some object against a linear positioning system.
subclass of: position

site
example: A nostril; the interior of the heart valve; the interior of a bottle.
description: A site is a spatial region bounded (in part or in whole) by material entities and may be occupied by material entities.
type: Class
subclass of: spatial region

protein sequence
subclass of: biopolymer sequence
subclass of: Restriction
  on property: is attribute of
  some values from: polypeptide
subclass of: Restriction
  on property: represents
  some values from: Class
    intersection of: molecular structure
    intersection of: Restriction
      on property: is attribute of
      some values from: polypeptide
type: Class
alternative: polypeptide sequence
alternative: amino acid sequence
description: A protein sequence is a symbolic sequence of amino acid residues in a protein or class of proteins.

boredom
type: Class
description: boredom is the emotion experience by those not interested in their surroundings or available activities.
subclass of: negative emotion

software method
subclass of: software entity
type: Class
description: A software method (also called subroutine, subprogram, procedure, method, function, or routine) is software designed to execute a specific task.

unique cell
type: Class
subclass of: cell (informational)
subclass of: Restriction
  on property: has attribute
  some values from: unique identifier
description: A unique cell is a cell that contains a unique value in the cellular automaton.

reactant role
type: Class
subclass of: molecular entity role
description: The role of a chemical entity present at the beginning of a chemical reaction.

set
subclass of: mathematical entity
subclass of: Restriction
  all values from: entity
  on property: has member
description: A set is a collection of entities, for which there may be zero members.
type: Class

erbium atom
type: Class
subclass of: atom

mereological chart
subclass of: chart
description: A mereological chart is a chart that illustrates the parts in the context of the whole.
type: Class

is represented by
inverse of: represents
sub property of: is referred to by
type: ObjectProperty
description: is represented by: a relation between an entity and some symbol.

linear value axis
description: A linear value axis is a value axis that corresponds to a scaling factor of 1 of the value range.
type: Class
subclass of: scaled value axis
disjoint with: logarithmic value axis

justification
type: Class
subclass of: proposition
description: A justification is a proposition that defends, explains or excuses some argument.

weak
subclass of: intensity
description: weak is a qualitative intensity value that is more intense than none, but less intense than mild.
type: Class

satisfaction
type: Class
description: satisfaction is an emotion of fulfillment of one's wishes, expectations, or needs, or the pleasure derived from this.
description: satisfaction is the emotion of fulfillling one's wishes, expectations, or needs.
alternative: contentment
alternative: pleasure
subclass of: contentment
subclass of: positive emotion

brand name
type: Class
subclass of: name
description: A brand name is a trademarked and marketed name of a product.

document
type: Class
subclass of: textual entity
description: A document is a bounded physical or digital representation of a body of information designed with the capacity (and usually intent) to communicate.

date of issue
description: the date at which an information content entity was made public.
subclass of: time instant
type: Class

assertion ovopub
subclass of: ovopub
description: An assertion ovopub is an ovopub that contains and links to an assertion subgraph with one or more statements that may be true or false, as well as statements describing its provenance.
type: Class

always
type: Class
description: always indicates that the event occurs at all times.
alternative: all of the time
subclass of: temporal qualifier

molecular structure descriptor
subclass of: Restriction
  on property: represents
  some values from: molecular structure
subclass of: Restriction
  some values from: molecule
  on property: is about
subclass of: chemical descriptor
description: molecular structure descriptor is data that describes some aspect of the molecular structure (composition) and is about some chemical entity.
type: Class

non-protein coding RNA (ncRNA)
description: A non-protein coding RNA (ncRNA) is a RNA molecular that cannot be used as a template for generating a protein product.
type: Class
subclass of: RNA transcript

to immobilize
subclass of: to contain
type: Class
description: to immobilize is the capability to contain an entity in such a way that it may not move in space.

activator role
subclass of: regulator role
type: Class
description: The role of a chemical entity that increases the rate of reaction.

predicting
type: Class
description: predicting is the process of formulating a proposition about a state of affairs which might be realized in the future.
subclass of: Restriction
  some values from: proposition
  on property: has product
subclass of: creating

ribonucleic acid sequence
subclass of: biopolymer sequence
subclass of: Restriction
  on property: is about
  some values from: ribonucleic acid
type: Class
alternative: RNA sequence
description: A ribonucleic acid sequence is a symbolic sequence of ribonucleic acid residues in a ribonucleic acid.

excellent quality
type: Class
subclass of: quality descriptor

suicidal
subclass of: negative emotion
type: Class
description: suicidal is the emotion of being deeply unhappy or depressed with thoughts of killing one's self.

document section
subclass of: document component
subclass of: Restriction
  some values from: document
  on property: is proper part of
description: A document section is a component of a document.
type: Class

solvent
type: Class
description: A solvent is a substance that can dissolve other substances (solutes).
subclass of: liquid solution component

diffusion
type: Class
subclass of: passive movement
description: diffusion is motion of particles at temperatures above absolute zero.

matrix
subclass of: Restriction
  on property: has proper part
  all values from: vector
subclass of: rank nonzero tensor
type: Class
alternative: rank 2 tensor
description: a matrix is a rank 2 tensor. It is represented as a rectangular array or table of numbers, symbols, or expressions arranged in rows and columns.

process model
disjoint with: object model
description: A process model is a representation of some process.
subclass of: model
subclass of: Restriction
  some values from: process
  on property: is model of
type: Class

is start time of
domain: time instant
type: ObjectProperty
sub property of: is time boundary of

is referenced by
sub property of: is referred to by
type: ObjectProperty
inverse of: references
description: is reference for is a relation between a document that provides information about an entity.

millennium
type: Class
subclass of: time interval
description: A millenium is a period of 1000 years

has first part
type: ObjectProperty
sub property of: has ordered part
description: has first part is a proper part relation in which the part is the first of a set of linearly ordered parts resulting from the projection of the whole on a linear coordinate system.

reagent
type: Class
description: A reagent is a substance that is added to a system in order to bring about a chemical reaction, or added to see if a reaction occurs.
subclass of: heterogeneous substance

software module
type: Class
description: A software module is software composed of a collection of software methods.
subclass of: software entity

audio recording
description: An audio recording is an electrical or mechanical inscription and re-creation of sound waves, such as spoken voice, singing, instrumental music, or sound effects.
subclass of: media
type: Class

remorse
description: remorse is an emotion of personal regret felt by a person after he or she has committed an act which they deem to be shameful, hurtful, or violent.
type: Class
subclass of: regret

material entity
type: Class
subset: core
subclass of: Restriction
  some values from: mass
  on property: has attribute
subclass of: Restriction
  all values from: Class
    union of: material entity
    union of: spatial region
  on property: has proper part
subclass of: object
description: A material entity is a physical entity that is spatially extended, exists as a whole at any point in time and has mass.

signal transducer
description: A signal transducer is a molecule that responds to and amplifies a signal in a signalling system.
subclass of: molecule
type: Class

procedure
subclass of: Restriction
  on property: is manifestation of
  some values from: action specification
subclass of: process
subclass of: Restriction
  all values from: Class
    union of: capability
    union of: objective
  on property: realizes
type: Class
description: A procedure is a process that attempts to achieve one or more objectives by following an established set of actions.

californium atom
type: Class
subclass of: atom

phosphorus atom
type: Class
subclass of: atom

chemical substance
equivalent class: Class
  union of: heterogeneous substance
  union of: homogeneous substance
subclass of: chemical entity
type: Class
alternative: mixture
description: A chemical substance is a chemical entity composed of two or more weakly (non-covalently) interacting chemical entities.

vanadium atom
type: Class
subclass of: atom

differential diagnosis
type: Class
subclass of: medical procedure
description: A differential diagnosis (sometimes abbreviated DDx, ddx, DD, D/Dx, or ΔΔ) is a systematic diagnostic method used to identify the presence of an entity where multiple alternatives are possible (and the process may be termed differential diagnostic procedure), and may also refer to any of the included candidate alternatives (which may also be termed candidate condition).

regret
description: regret is a feeling of sadness, repentance, or disappointment over something that has happened or been done.
subclass of: worry
type: Class

transforms into
inverse of: is transformed from
type: ObjectProperty
type: TransitiveProperty
sub property of: is causally related to
description: A transitive temporal relation in which an entity mainstains identity from one state to another.

lithium atom
type: Class
subclass of: atom

insertion variant role
description: An insertion variant role is the role of an sequence that contains a sub-sequence that is considered to be an addition relative to the frame of reference.
subclass of: sequence variant role
type: Class

regulation of process spatial extent
description: regulation of a process spatial extent is a process that modulates the spatial extent of another process relative to some reference process.
type: Class
subclass of: regulation of process
example: heating the solution causes greater diffusion of a chemical.

chromosome
subclass of: Restriction
  on property: has direct part
  some values from: protein
subclass of: molecular complex
subclass of: Restriction
  some values from: deoxyribonucleic acid
  on property: has direct part
type: Class
description: A chromosome is a molecular complex of circular or linear DNA and bound proteins.

decomposition reaction
description: A decomposition reaction is an inorganic reaction in which molecule is fragmented into submolecules or atoms.
subclass of: inorganic reaction
type: Class

software execution
subclass of: information processing
description: software execution is the process of executing software on a computing device.
type: Class

administrative role
subclass of: occupational role
type: Class
description: An administrative role is the role of an individual that performs administrative tasks for some organization.

parameterized data transformation
subclass of: Restriction
  some values from: parameter
  on property: has parameter
subclass of: data transformation
type: Class
description: A parameterized data transformation is a data transformation whose behaviour may be modified by one or more parameters.

variable
type: Class
description: A variable is a value that may change within the scope of a given problem or set of operations.
subclass of: mathematical entity

uncertainty value
description: The uncertainty value (margin of error) of a measurement is a range of values likely to enclose the true value.
type: Class
subclass of: quantity

percentile
type: Class
subclass of: quantile
description: A percentile (or a centile) is a quantile that divides the given probability distribution, or sample, into 100 equal-sized intervals.

honor's thesis
description: An honor's thesis is a thesis prepared as a requirement for an honor's undergraduate degree.
type: Class
subclass of: thesis document

microarray probe set identifier
subclass of: molecular identifier
type: Class
description: A microarray probe set identifier is an identifier for a set of probe pairs selected to represent expressed sequences on an array.

description
description: A description is language entity in which elements of a language (formal or natural) are used to characterize an entity.
subclass of: language entity
subclass of: Restriction
  all values from: entity
  on property: describes
type: Class

is disputed by
type: ObjectProperty
sub property of: has evidence
inverse of: is disputing evidence for
description: has disputing evidence is a relation between a proposition and something that disputes (does not directly support) the truth of the assertion.

to consume
description: to consume is the capability to internalize a material entity.
subclass of: to actively interact with
type: Class

is manifested as
sub property of: is generically related with
description: is manifested as is a relation between an expression and its manifestations.
example: the english language version of 'war of the worlds' is manifested as a collection of english language versions of the book.
inverse of: is manifestation of
type: ObjectProperty

language
subclass of: language entity
description: Language is a language entity which is the result of encoding and decoding information through systematic creation and usage of systems of symbols, each pairing a specific sign with an intended meaning, established through social conventions
type: Class

decrease in number of objects produced
subclass of: difference in number of objects produced
type: Class
description: An decrease in the number of objects produced is the negative value of a difference in number of objects produced.

placebo
type: Class
subclass of: heterogeneous substance
description: A placebo is a medically ineffectual treatment for a medical condition intended to deceive the recipient.

to store
type: Class
description: to store is the capability to place an object into a medium in which it can be retrieved in the future.
subclass of: to actively interact with

physical entity identifier
subclass of: identifier
type: Class
description: A physical entity identifier is an identifier for a physical entity.

to serve as a template for DNA synthesis
description: to serve as a template for DNA synthesis is the capability of a chemical entity to provide the necessary information or scaffold by which a DNA molecule may be produced.
subclass of: to serve as a template for molecular synthesis
type: Class

blog
description: A blog is a publication accessible at some website and is typically about various experiences.
subclass of: publication
type: Class

panic
subclass of: fear
type: Class
description: Panic is a sudden emotion of fear which is so strong as to dominate or prevent reason and logical thinking, replacing it with overwhelming feelings of anxiety and frantic agitation consistent with an animalistic fight-or-flight reaction.

to inject
description: to inject is the capability to administer a substance into some object through its external barrier.
subclass of: to modify
type: Class

start date
subclass of: time instant
type: Class
description: A start date is a time instant pertaining to the date of the beginning of a process.

molecular complex
type: Class
description: A molecular complex is a chemical complex composed of at least one weakly interacting molecule.
subclass of: Restriction
  some values from: molecule
  on property: has direct part
subclass of: chemical complex

is first part of
description: is first part of is a proper part relation in which the part is the first of a set of linearly ordered parts resulting from the projection of the whole on a linear coordinate system.
type: ObjectProperty
sub property of: is ordered part of
inverse of: has first part

to oxidize
description: to oxidize is the capability to remove an electron or an increase in oxidation state of a chemical entity.
subclass of: to modify oxidation state of
type: Class

ytterbium atom
subclass of: atom
type: Class

to change spatially
subclass of: to modify
description: to change spatially is the capability to affect the physical movement of some entity.
type: Class

y cartesian coordinate
type: Class
subclass of: cartesian coordinate
description: An y cartesian coordinate is the coordinate of an object onto the y-axis of a cartesian coordinate system.

van der Waals interaction
type: Class
description: van der Waals' interaction is an a weak submolecular interaction between an instantaneous dipole and induced dipole.
subclass of: weak submolecular component

has implementation
type: ObjectProperty
sub property of: has attribute
description: has implementation is a relation between a specification and an implementation that conforms to it.

has attribute
type: ObjectProperty
description: 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.
inverse of: is attribute of
sub property of: is related to
domain: entity
subset: core

gene promoter
description: A gene promoter is a region of DNA that initiates transcription of a particular gene.
type: Class
subclass of: gene regulatory component

drug drug interaction
subclass of: Restriction
  min qualified cardinality: 2
  on class: drug
  on property: has participant
subclass of: chemical effect
type: Class
description: A drug-drug interaction is an interaction in which two drugs interact in such a way to produce a non-additive biological response.

fullerene
description: fullerene is a carbon allotrope which take the form of a hollow sphere, ellipsoid, or tube.
type: Class
subclass of: carbon allotrope

severe
subclass of: intensity
description: severe is a qualitative intensity value that is more intense than strong, but less intense than fatal.
type: Class

disappointment
subclass of: negative emotion
description: disappointment is the feeling of dissatisfaction that follows the failure of expectations or hopes to manifest.
alternative: disappointed
alternative: disappointing
type: Class

polyhedral surface
subclass of: Restriction
  on property: has part
  some values from: polygonal face
subclass of: geometric entity
description: A polyhedral surface is composed of polygonal faces.
type: Class

curiosity
subclass of: desire
description: curiosity is the strong desire to know or learn something.
type: Class

is spatiotemporally related to
description: A is spatiotemporally related to B iff A is in the spatial or temporal vicinity of B
type: ObjectProperty
type: SymmetricProperty
sub property of: is related to
subset: core

poor quality
subclass of: quality descriptor
type: Class

pharmaceutical drug
subclass of: drug
subclass of: Restriction
  on property: has direct part
  some values from: active ingredient
type: Class
description: A pharmaceutical preparation is a chemical substance that is approved for use in the medical diagnosis, cure, treatment, or prevention of disease.
alternative: medicine

synonym
description: A synonym is a word with the same or very similar meanings.
equivalent class: Class
  intersection of: term variant
  intersection of: Restriction
    some values from: term
    on property: is similar to
subclass of: term variant
type: Class

has unique identifier
range: unique identifier
description: has unique identifier is an inverse functional relation between an entity and an identifier that uniquely identifies it.
type: InverseFunctionalProperty
type: ObjectProperty
sub property of: has identifier
inverse of: is unique identifier for

ordered list item
description: an ordered list item is an item in an ordered list.
type: Class
subclass of: Class
  intersection of: list item
  intersection of: Restriction
    on property: has attribute
    some values from: ordinal position
  intersection of: Restriction
    some values from: list
    on property: is part of
subclass of: list item

medical health record
type: Class
description: A medical health record is a record of a single patient's medical history.
subclass of: record

gene-disease association linked with chromosomal rearrangement
type: Class
description: A gene-disease association in which the gene is included in a chromosomal rearrangement associated with a particular manifestation of the disease.
subclass of: gene-disease association linked with genomic alterations

is phenotype of
type: ObjectProperty
sub property of: is attribute of
description: is phenotype of is a relation between an observable/measurable characteristic and an object.

to ingest
type: Class
description: to ingest is the capability to take into the body by the mouth for digestion or absorption.
subclass of: to consume

isomer
subclass of: Restriction
  some values from: molecule
  on property: is variant of
subclass of: molecule
equivalent class: Class
  intersection of: molecule
  intersection of: Restriction
    some values from: molecule
    on property: is variant of
type: Class
description: An isomer is a molecule that is compositionally identical to another molecule as a result of a different atomic connectivity.

osmosis
type: Class
subclass of: diffusion
description: osmosis is the movement of water molecules through a selectively-permeable membrane down a water potential gradient.

coordinate system
type: Class
subclass of: spatial specification
description: A coordinate system is a specification for spatial location that uses a set of numbers, or coordinates, to uniquely determine the position of a point or other geometric element.

metabolism
subclass of: chemical interaction
type: Class
description: Metabolism is the set of chemical processes that occur within a living organism in order to maintain life.

to fluoresce
subclass of: to luminesce
description: to fluoresce is to emit light as a result of absorbing light or other electromagnetic radiation.
type: Class

is subject of
type: ObjectProperty
sub property of: is described by

function
subclass of: capability
subset: core
disjoint with: dysfunction
type: Class
description: A function is a capability that satisfies some agentive objective, or (evolutionary) optimization.

to magnify
subclass of: to change appearance
type: Class
description: to magnify is the capability to increase the appearance of the size of an object.

sum
type: Class
description: A sum is the result of adding a set of values together.
subclass of: quantity

century
type: Class
description: A century is a period of one hundred years.
subclass of: time interval

SADI web service invocation
type: Class
description: A SADI web service invocation is the excution of a SADI web service.
subclass of: web service invocation
subclass of: Restriction
  some values from: SADI semantic web service
  on property: has agent
subset: sadi

post-translational modification
subclass of: amino acid polymer submolecule
type: Class
description: a post-translational modification is a part of a protein that was added, removed, or modified as a result of a chemical reaction after synthesis.

collection of points
subclass of: Restriction
  all values from: point
  on property: has member
subclass of: geometric entity
subclass of: collection
description: A collection of points is a geometric entity that contains a non-zero set of geometric points.
type: Class

database
type: Class
description: A database is a set of tables.
subclass of: computational entity

pseudogene
equivalent to: http://purl.obolibrary.org/obo/SO_0000336
description: A pseudo gene is a region of a nucleic acid that either cannot be transcribed, or its RNA transcript cannot be translated.
type: Class
subclass of: nucleic acid part

positional role
type: Class
disjoint with: comparative role
description: A positional role is an abstract role which holds by comparing position to another object of reference.
subclass of: abstract role

axis
type: Class
comment: The value of a plotted geometric objects (e.g. point) can be obtained from the perpendicular projection of the position of the object onto the axis. Axis may also be associated with a textual description of what the values on the axis represents.
description: An axis is a line segment that is part of a statistical graph in which the position along the line corresponds to a numeric or categorical value.
subclass of: Restriction
  some values from: statistical graph
  on property: is component part of
subclass of: directed line segment
example: The left vertical and bottom horizontal lines with tickmarks in Graph 1 http://tinyurl.com/opwnvm

has identifier
inverse of: is identifier for
description: a relation between an entity and an identifier.
sub property of: has attribute
type: ObjectProperty
range: identifier

vertex normal
description: A vertext normal is the normalized average of the surface normals of the faces that contain that vertex.
subclass of: vector line
type: Class

helium atom
subclass of: atom
type: Class

is prior version of
sub property of: is derived from
sub property of: is version of
type: ObjectProperty
description: A is prior version of B iff A is a variant of B and B derives from A.
inverse of: is subsequent version of

has output
sub property of: has participant
type: ObjectProperty
subset: sadi
subset: core
description: has output is a relation between an process and an entity, where the entity is present at the end of the process.
inverse of: is output of

t-statistic
type: Class
description: A t-statistic is a ratio of the departure of an estimated parameter from its notional value and its standard error.
subclass of: ratio

professor
description: A professor is an individual that is a scholarly teacher.
type: Class
subclass of: academic

tertiary structure descriptor
subclass of: biomolecular structure descriptor
description: A tertiary structure descriptor describes 3D topological patterns in a biopolymer.
type: Class

iodine atom
type: Class
subclass of: atom

correspondence section
description: A correspondence section is a document section that contains the details for contacting the corresponding author.
subclass of: document section
type: Class

figure part
subclass of: media
subclass of: Restriction
  on property: is proper part of
  some values from: figure
type: Class
description: A figure part is a part of a figure.

is preceded by
sub property of: is causally related to
equivalent to: OBO_REL:preceded_by
type: ObjectProperty
type: TransitiveProperty

referent cell
type: Class
description: A referent cell is a cell that is the referent of some function or pointer.
subclass of: cell (informational)
subclass of: Restriction
  on property: is referred to by
  some values from: cell (informational)

hassium atom
subclass of: atom
type: Class

annotation
subclass of: description
subclass of: Restriction
  some values from: entity
  on property: in relation to
description: An annotation is a written explanatory or critical description, or other in-context information (e.g., pattern, motif, link), that has been associated with data or other types of information.
type: Class

is immediately preceded by
description: A non-transitive temporal relation in which one process is immediately preceded by another process, such that there is no interval of time between the two processes.
sub property of: is preceded by
type: ObjectProperty

gene-disease association linked with modifying mutation
subclass of: gene-disease association linked with genetic variation
description: A gene-disease association in which a gene mutation is known to modify the clinical presentation of the disease.
type: Class

base pair
description: A base pair is a weak molecular interaction composed of hydrogen bonds between nucleobases.
subclass of: weak submolecular component
type: Class

to decrease the rate of formation
description: to decrease the rate of formation is to regulate the rate of formation in a manner that decreases this rate relative to a reference process.
subclass of: to regulate the rate of formation
type: Class

is dissimilar to
type: ObjectProperty
type: SymmetricProperty
sub property of: is variant of
description: is dissimilar to is a relation between two entities in which one is considered dissimilar to the other based on some criteria.

stop codon
type: Class
description: A stop codon (or termination codon) is a nucleotide triplet within messenger RNA that signals a termination of translation.
subclass of: Restriction
  on property: is part of
  some values from: messenger RNA
subclass of: RNA transcript component

is trigger for
type: ObjectProperty
sub property of: is causally related from

regulates
description: x regulates y if and only if x is a process and y is either a process or a quality, and the progression of x exerts an effect on the frequency, rate or extent of y
type: ObjectProperty
sub property of: is causally related to
inverse of: is regulated by

base stack
description: A base stack is a stabilizing interaction of DNA and RNA between spatially adjacent nucleotides and possibly involving London dispersion, hydrophobic and electrostatic forces.
type: Class
subclass of: weak submolecular component

amino acid polymer submolecule
description: An amino acid polymer submolecule is a submolecule of an amino acid polymer.
type: Class
subclass of: organic submolecule
subclass of: Restriction
  on property: is part of
  some values from: amino acid polymer

pattern
subclass of: mathematical entity
description: A pattern is a generalized representation of some repeatable concrete or informational item.
type: Class

regulation of object production
type: Class
subclass of: regulation of object quantity
description: regulation of a participant quantity is the regulation of a process in which the quantity of a selected participant is increased.

controlled observational cohort study
description: In a controlled observational cohort study, two groups of subjects are selected from two populations that are thought to differ in only one characteristic. The groups of subjects are studied for a specific period and contrasted at the end of the study period.
type: Class
subclass of: observational study

organic polymer
subclass of: organic molecule
subclass of: Restriction
  on property: has direct part
  some values from: organic submolecule
type: Class
equivalent class: Class
  intersection of: organic molecule
  intersection of: Restriction
    some values from: monomer
    on property: has direct part
  intersection of: Restriction
    on property: has direct part
    some values from: organic submolecule
description: An organic polymer is an organic molecule composed of connected set of monomeric units.

negative charge
description: A negative charge is a charge where the value is negative.
type: Class
subclass of: complete charge

to modify conformation of
subclass of: to modify
type: Class
description: to modify conformation of is to affect the spatial arrangement of an entity.

gene
equivalent to: http://purl.obolibrary.org/obo/SO_0000704
equivalent to: biopax:Gene
type: Class
description: A gene is part of a nucleic acid that contains all the necessary elements to encode a functional transcript.
subclass of: nucleic acid part

publishing role
description: A publishing role is the role of an individual that is involved in the preparation and issue of creative works for consumption by a wider audience.
subclass of: occupational role
type: Class

end position
alternative: stop position
description: An end position is the distal position of an object relative to an origin in a linear system.
subclass of: linear position
type: Class

bill
subclass of: legal document
description: A bill is proposed legislation under consideration by a legislature.
type: Class

drop line
subclass of: statistical graph line
type: Class
description: A drop line is a statistical graph line that vertically or horizontally connects a data series line with a value axis in a statistical graph.

hermaphrodite
equivalent to: PATO:0001827
description: hermaphrodite is a biological sex of an individual with both male and female sexual organs.
type: Class
subclass of: intersex
disjoint with: male

secondary structure descriptor
subclass of: biomolecular structure descriptor
type: Class
description: A secondary structure descriptor describes local topological patterns in a biopolymer.

measuring
alternative: measurement
description: measuring is the process of determining the size, amount, or degree of (something) by using an instrument or device marked in standard units
type: Class
subclass of: Restriction
  on property: has input
  some values from: Class
    union of: quality
    union of: process
    union of: object
subclass of: interacting
subclass of: Restriction
  on property: has output
  some values from: measurement value

social entity
subclass of: information content entity
type: Class
description: A social entity pertains to the interaction among individuals and groups.

is greater than or equal to
type: TransitiveProperty
type: ObjectProperty
inverse of: is lesser than or equal to
sub property of: is numerically comparable to
description: is greater than or equal to is a comparison relation between two quantities in which the first has a value larger or equal to the second.

has quality
sub property of: has property
type: InverseFunctionalProperty
type: ObjectProperty
range: quality
inverse of: is quality of
description: has quality is a relation between an entity and the quality that it bears.

is weakly interacting with (transitive)
type: TransitiveProperty
type: SymmetricProperty
type: ObjectProperty
description: is weakly interacting with is a symmetric relation between two molecular entities (or any part thereof) that are interacting through some weak force (van der waals, hydrogen bonds, electrostatic interactions)
range: Class
  union of: molecule
  union of: Restriction
    on property: is part of
    some values from: molecule
domain: Class
  union of: molecule
  union of: Restriction
    on property: is part of
    some values from: molecule
sub property of: is connected to

decreasing line
subclass of: trend line
type: Class
description: An decreasing line is a line segment in which the startpoint and endpoint are ordered along one dimension and the difference of values in a second dimension is negative.

poison
subclass of: drug
type: Class
description: A poison is a drug that is harzardous or toxic to an organism when ingested at a certain quantity.

is concretization of
description: A is concretization of B iff A is a quality of a material entity and B is an informational entity.
type: ObjectProperty
sub property of: is generically related with

specialized object
subclass of: object
equivalent class: Class
  intersection of: object
  intersection of: Restriction
    on property: has realizable property
    some values from: realizable entity
type: Class

hope
subclass of: positive emotion
type: Class
description: hope is an emotion of belief in a positive outcome related to events and circumstances in one's life.

nurse role
subclass of: medical role
type: Class
description: A nurse role is the role of an individual that is involved in the protection, promotion, and optimization of health and abilities, prevention of illness and injury, alleviation of suffering through the diagnosis and treatment of human response, and advocacy in the care of individuals, families, communities, and populations.

non-polar addition reaction
description: A non-polar addition reaction is an addition reaction involving non-polar residues.
type: Class
subclass of: addition reaction

cartesian coordinate system
description: A Cartesian coordinate system specifies each point uniquely in a plane by a pair of numerical coordinates, which are the signed distances from the point to two fixed perpendicular directed lines, measured in the same unit of length.
type: Class
subclass of: coordinate system

gesturing
description: gesturing is a form of non-verbal communication in which visible bodily actions communicate particular messages, either in place of speech or together and in parallel with spoken words. Gestures include movement of the hands, face, or other parts of the body.
type: Class
subclass of: communicating

differential equation
description: A differential equation is a mathematical equation for an unknown function of one or several variables that relates the values of the function itself and its derivatives of various orders.
type: Class
subclass of: equation

life status
description: life status is the quality of whether something is alive or dead.
equivalent class: Class
  union of: alive
  union of: dead
type: Class
subclass of: biological quality

apathy
type: Class
description: apathy is an emotion characterized by lack of interest, enthusiasm, or concern.
subclass of: indifference

chemical synthesis
subclass of: Restriction
  on property: has product
  some values from: chemical entity
subclass of: creating
subclass of: Restriction
  on property: has agent
  some values from: enzyme
description: chemical synthesis is synthesis of a chemical entity from physical precursors through one or more chemical interactions or reactions.
type: Class

product
type: Class
subclass of: Restriction
  on property: is derived from
  some values from: substrate
subclass of: Restriction
  some values from: chemical reaction
  on property: is output of
subclass of: molecule
equivalent class: Class
  intersection of: molecule
  intersection of: Restriction
    on property: is output of
    some values from: chemical reaction
  intersection of: Restriction
    on property: is derived from
    some values from: substrate

passive movement
description: passive movement is the process in which an object is spatially displaced without an expenditure of energy contained in molecular bonds.
type: Class
subclass of: movement

has participant
subset: core
equivalent to: OBO_REL:has_participant
description: has participant is a relation that describes the participation of the object in the (processual) subject.
type: ObjectProperty
sub property of: is spatiotemporally related to
domain: process

covalent bond
subclass of: Restriction
  on class: atom
  qualified cardinality: 2
  on property: has component part
subclass of: strong submolecular component
type: Class
description: A covalent bond is a strong submolecular interaction between atoms.

organic submolecule
subclass of: Class
  intersection of: Restriction
    some values from: carbon atom
    on property: has part
  intersection of: Restriction
    on property: has part
    some values from: oxygen atom
subclass of: submolecule
subclass of: Restriction
  on property: is part of
  some values from: organic molecule
description: An organic submolecule is connected region of a molecule.
type: Class

academic role
subclass of: occupational role
description: An academic role is a social role that pertains to the academic institution.
type: Class

molecular structure file
subclass of: Restriction
  on property: has part
  some values from: molecular structure descriptor
subclass of: file
subclass of: Restriction
  on property: has part
  some values from: cartesian coordinate
subclass of: Restriction
  some values from: biomolecular structure descriptor
  on property: is concretization of
type: Class
description: A molecular structure file is a file that contains a description of molecular structure.

calcium atom
type: Class
subclass of: atom

gene-gene association
subclass of: association
subclass of: Restriction
  on property: refers to
  on class: gene
  qualified cardinality: 2
type: Class
comment: A gene-gene association is an association between two genes.

process down-regulation
type: Class
subclass of: regulation of process
description: process down-regulation is a process that decreases the frequency, rate or extent of one or more processes in relation to a reference state.
alternative: negative regulation

indecision
subclass of: negative emotion
description: indecision is the emotion of being unable to choose between two or more possible courses of action.
type: Class
alternative: indecisiveness

draft
type: Class
description: draft is the quality of text that has not yet complete.
alternative: drafted
subclass of: written

biologic
type: Class
subclass of: pharmaceutical drug
description: A biologic, also known as a biologic medical product, biological, or biopharmaceutical, is any pharmaceutical drug product manufactured in, extracted from, or semisynthesized from biological sources.

is located in
inverse of: is location of
description: A is located in B iff the spatialtemporial region occupied by A is part of the spatialtemporal region occupied by B. [T][R]
equivalent to: OBO_REL:located_in
type: ObjectProperty
type: TransitiveProperty
example: A parasite in the interior of a person's intestine is located in their intestinal lumen.
sub property of: is spatiotemporally related to
subset: core

has frequency
sub property of: has measurement value
description: has frequency is a relation that specifies the occurence of an object or event
inverse of: is frequency of
type: ObjectProperty

biochemical inhibition
subclass of: regulation of catalytic capability
subclass of: Restriction
  on property: realizes
  some values from: to increase the activation energy
description: biochemical inhibition is a molecular interaction that decreases the catalytic rate of the target enzyme.
type: Class

carbon allotrope
type: Class
subclass of: allotrope
subclass of: Restriction
  on property: has direct part
  all values from: carbon atom
description: A carbon allotrope is a chemical substance composed of carbon.

has substrate
type: ObjectProperty
description: has substrate is a relation between a process and an object where the object is destroyed by its participation in the process.
sub property of: has target

manual
subclass of: publication
type: Class
description: A manual is a document that instructs on the usage of a device.

straight
see also: PATO:0002180 [for material entities]
subclass of: curvature
description: straight is a quality of a bearer that is free of curves, bends, or angles.
type: Class

is positionally before
sub property of: is connected to
type: ObjectProperty
type: TransitiveProperty
description: is positionally before is a relation between entities placed on a dimensional axis in which the projection of the position of the first entity is numerically less than the projection of the position of the second entity.

full disagreement
subclass of: disagreement
type: Class
description: full agreement is the result of consensus decision making when members of the group unanimously disagree.

mass spectrometer
subclass of: data collection device
similar to: http://purl.obolibrary.org/obo/OBI_0000049
type: Class
description: A mass spectrometer is a device that identifies ions based on their mass to charge ratio using an electromagnetic field.

is ordered part of
sub property of: is proper part of
description: is ordered part of is a proper part relation in which the part is one of a set of linearly ordered parts resulting from the projection of the whole on a linear coordinate system.
type: ObjectProperty

submolecule
type: Class
subclass of: Restriction
  on property: has component part
  some values from: atom
subclass of: submolecular entity
subclass of: Restriction
  on property: is component part of
  some values from: molecule
description: A submolecule is any part of a molecule.

nickel atom
type: Class
subclass of: atom

imaginary
type: Class
subclass of: hypothetical
description: the quality of existing only in the imagination. it can be used to describe concepts, ideas, or things that are the product of a cognitive process.

a little quantifier
type: Class
subclass of: quantity modifier

mRNA splice variant
subclass of: messenger RNA
subclass of: Restriction
  on property: is derived from
  some values from: Class
    intersection of: messenger RNA
    intersection of: Restriction
      some values from: splice site
      on property: has direct part
description: An mRNA splice variant is an mRNA molecule that varies from another mRNA molecule of the same gene origin but having a different final sequence due to differences in its assembly from splice sites.
type: Class

text span end position
subclass of: end position
type: Class
description: text span end position is the position (offset) of the last character of a text span in relation the text it is from.

worry
subclass of: apprehension
type: Class
description: worry is the emotion characterized by concer over a real or imaginary issue.

has phenotype
sub property of: has attribute
type: ObjectProperty
description: has phenotype is a relation between an object and an observable/measurable characteristic.
inverse of: is phenotype of

to be electronically modified
subclass of: to be modified
type: Class
description: to be electronically modified is the capability of a chemical entity to have electrons added or removed.

academic department
type: Class
subclass of: academic organization
description: An academic department is a division of a university or school faculty devoted to a particular academic discipline.

radio receiver
subclass of: communication device
description: A radio receiver is a communication device that receives its input from an antenna, uses electronic filters to separate a wanted radio signal from all other signals picked up by this antenna, amplifies it to a level suitable for further processing, and finally converts through demodulation and decoding the signal into a form usable for the consumer, such as sound, pictures, digital data, measurement values, navigational positions.
type: Class

arousal
type: Class
description: arousal is an emotion characterized by state of reactive to stimuli. It involves the activation of the reticular activating system in the brain stem, the autonomic nervous system and the endocrine system, leading to increased heart rate and blood pressure and a condition of sensory alertness, mobility and readiness to respond.
subclass of: positive emotion

messenger RNA
subclass of: Restriction
  some values from: protein
  on property: encodes
subclass of: RNA transcript
description: A messenger RNA is a ribonucleic acid that contains an untranslated region (UTR) and protein coding sequence and lacks introns.
type: Class

ray
subclass of: line
description: A ray is a line which that is bounded by a startpoint and extends outwards infinitely along one dimension.
type: Class

design
type: Class
description: A specification of an object, manifested by an agent, intended to accomplish goals, in a particular environment, using a set of primitive components, satisfying a set of requirements, subject to constraints.
subclass of: functional specification

molecule
subclass of: chemical entity
subclass of: Restriction
  some values from: atom
  on property: has part
type: Class
description: A molecule is a single chemical entity composed of fully covalently bonded atoms.

left closed interval
subclass of: interval
type: Class
description: a left closed interval is an interval in which there is a real number that is smaller than all its elements.

citation
type: Class
subclass of: document component
description: A citation is a textual entity which denotes a source described in the bibliography or reference section of a document.

sodium atom
subclass of: atom
type: Class

to be interacted with
subclass of: capability
subclass of: Restriction
  some values from: entity
  on property: in relation to
subclass of: Restriction
  some values from: to interact with
  on property: is mutual disposition of
type: Class
description: to be interacted with is the capability of an object to be target of a physical interaction.

time instant
description: A time instant is a temporal region which occurs instantaneously, e.g. having no duration.
subclass of: time measurement
example: at this moment; the moment at which a finger is detached in an industrial accident; the moment at which a child is born; the moment of death
type: Class

peer reviewed article
description: A peer reviewed article is an article that has undergone peer-review and deemed acceptable for publication.
subclass of: article
subclass of: Restriction
  some values from: peer-reviewed
  on property: has quality
type: Class

social role
type: Class
subclass of: role
description: A social role is a role that is ascribed to individuals in a community.

sulfur atom
type: Class
subclass of: atom

province
description: A province is a territorial unit, almost always an administrative division, within a country or state.
subclass of: geopolitical region
subclass of: Restriction
  some values from: country
  on property: is proper part of
type: Class

name
subclass of: Restriction
  on property: has value
  some values from: string
subclass of: label
description: A name is a label used to identify an entity.
type: Class

is provider of
description: is provider of is a relation between a source and the entity it makes available.
sub property of: is source of
type: ObjectProperty
inverse of: has provider

intensity
type: Class
description: intensity is a quality that represents the strength or degree of something.
subclass of: quality

secondary title
subclass of: title
description: A secondary title is a title of lesser importance that should be used after the first title in describing some entity.
type: Class
alternative: subtitle, alternative title

humiliation
type: Class
description: Humiliation is the abasement of pride, which creates mortification or leads to a state of being humbled or reduced to lowliness or submission.
subclass of: hurt

informational entity identifier
subclass of: identifier
type: Class
description: An informational entity identifier is an identifier for an informational entity.

gene-disease association linked with post-translational modification
example: methylation or phosphorylation of protein product
description: A gene-disease association in which the disease phenotype is associated with post-translational modifications in the protein product.
subclass of: gene-disease biomarker association
type: Class

deoxyribonucleic acid
type: Class
subclass of: Restriction
  min qualified cardinality: 2
  on class: deoxyribonucleotide residue
  on property: has component part
subclass of: nucleic acid
description: A deoxyribonucleic acid is an organic polymer composed of a sequence of deoxyribonucleotide residues.

finalized
subclass of: written
description: finalized is the quality of a textual entity that is in its final form.
type: Class

nucleic acid sequence
type: Class
description: A nucleic acid sequence is a symbolic sequence of nucleic acid residues in a nucleic acid.
subclass of: Restriction
  some values from: nucleic acid
  on property: is attribute of
subclass of: biopolymer sequence
subclass of: Restriction
  some values from: Class
    intersection of: molecular structure
    intersection of: Restriction
      some values from: nucleic acid
      on property: is attribute of
  on property: represents

female
description: female is a biological sex of an individual with female sexual organs.
type: Class
subclass of: biological sex

data analysis
description: data analysis is a process of inspecting, cleaning, transforming, and modeling data with the goal of highlighting useful information, suggesting conclusions, and supporting decision making.
type: Class
subclass of: information processing
subclass of: Class
  intersection of: Restriction
    on property: has output
    some values from: proposition
  intersection of: Restriction
    on property: has input
    some values from: data item

article
type: Class
subclass of: publication
description: An article is a publication that is stand-alone section of a larger work.

scalar
type: Class
description: a scalar is a rank 0 tensor and is an element of a field that is used to define a vector space.
alternative: rank 0 tensor
subclass of: tensor

has last part
type: ObjectProperty
description: has last part is a proper part relation in which the part is the last of a set of linearly ordered parts resulting from the projection of the whole on a linear coordinate system.
sub property of: has ordered part
inverse of: is last part of

web service
description: A web service is a software application that can be accessed over a network, such as the Internet, and executed on a remote system hosting the requested services.
subclass of: software application
type: Class

mostly quantifier
type: Class
subclass of: quantity modifier

secondary category axis
example: The category axis that corresponds to months in Graph 1 of http://tinyurl.com/opwnvm
description: A secondary category axis is a category axis that defines a finer granular part (or subset) of the value range of the primary category axis.
type: Class
subclass of: category axis

praseodymium atom
type: Class
subclass of: atom

tissue
subclass of: Restriction
  on property: has direct part
  some values from: cell
subclass of: biological entity
type: Class
description: A tissue is a mereologically maximal collection of cells that together perform some function.

history
description: history is a sequence of past events.
type: Class
subclass of: description

acid
description: An acid is a molecular entity in solution capable of donating a hydron (Bronsted acid) or capable of forming a covalent bond with an electron pair (Lewis acid).
type: Class
subclass of: liquid solution component

to ionize
type: Class
description: to ionize is the capability to physically convert an atom or molecule into an ion by adding or removing charged particles such as electrons or other ions.
subclass of: to modify electronically

tin atom
type: Class
subclass of: atom

dying
type: Class
subclass of: Restriction
  some values from: biological entity
  on property: has substrate
subclass of: destroying
description: dying is a process in which a biological entity ceases to exist.

rna gene
subclass of: Restriction
  some values from: ribonucleic acid
  on property: is proper part of
subclass of: gene
description: A gene that is located on RNA.
type: Class

5' untranslated region
type: Class
subclass of: gene component
description: The five prime untranslated region (5' UTR) is a section of messenger RNA (mRNA) and the DNA that codes for it that starts at the +1 position (where transcription begins) and ends one nucleotide before the start codon (usually AUG) of the coding region.

label
type: Class
subclass of: term
description: a label is a term that is associated with some entity

neodymium atom
type: Class
subclass of: atom

molybdemum atom
subclass of: atom
type: Class

toxic role
type: Class
subclass of: chemical substance role
description: A toxic role is the role of a chemical substance that is poisonous.

duplicate role
description: a duplicate role is a comparative role that holds when one item is an exact copy of another in a specific set.
type: Class
subclass of: comparative role

file
equivalent to: http://www.w3.org/ns/dcat#Distribution
subclass of: media
description: A file is an information-bearing object that contains a physical embodiment of some information using a particular character encoding.
type: Class

stacked bar graph
example: Graphs 6,7 in http://tinyurl.com/opwnvm
description: A stacked bar graph is a bar graph in which each rectangular bar is partioned by the categorical value of each series of data.
type: Class
subclass of: bar graph

electronic structure
description: electronic structure is the electron configuration is the distribution of electrons of an atom or molecule (or other physical structure) in atomic or molecular orbitals.
alternative: electronic configuration
example: the electron configuration of the neon atom is 1s2 2s2 2p6.
subclass of: chemical structure
type: Class

krypton atom
type: Class
subclass of: atom

to serve as
type: Class
description: to serve as is the capability to act in a manner corresponding to some role.
subclass of: to actively interact with

start time
subclass of: time instant
description: A start time is a time instant pertaining to the time at which a process begins.
type: Class

lutetium atom
subclass of: atom
type: Class

node
type: Class
description: a node or vertex is a point in a graph.
alternative: vertex
subclass of: point

strontium atom
type: Class
subclass of: atom

exact cross-reference
type: Class
subclass of: database cross-reference
description: An exact cross-reference is a database cross-reference in which one entity is equivalent to the other based on all the entitie's attributes (minus the source).

homogeneous
type: Class
description: homogeneous is a quality that describes the uniform composition of an object.
disjoint with: heterogeneous
subclass of: compositional quality

work phone number
type: Class
subclass of: telephone number
description: a work phone number is the number to connect to an phone at a place of work.

character position
type: Class
subclass of: ordinal position
subclass of: Restriction
  all values from: integer
  on property: has value
alternative: character offset
description: The ordinal position of a character in a sequence of characters.

to lose a covalent bond
type: Class
description: to lose a covalent bond is the capability of a chemical entity to have bonds removed.
subclass of: to be covalently modified

deoxyribonucleic acid template
subclass of: Restriction
  on property: has function
  some values from: Class
    union of: to serve as a template for RNA synthesis
    union of: to serve as a template for DNA synthesis
subclass of: deoxyribonucleic acid
type: Class
description: A deoxyribonucleic acid template is a deoxyribonucleic acid that provides the template to synthesize a complementary strand of DNA through transcription.

surface area
subclass of: area
description: The surface area of a is a measure of the total area that the surface of the object occupies.
type: Class

regulation of process frequency
type: Class
subclass of: regulation of process
description: regulation of a process duration is a process that modulates the frequency of another process relative to some reference process.

is proper part of
type: IrreflexiveProperty
type: AsymmetricProperty
type: ObjectProperty
description: is proper part of is an asymmetric, irreflexive (normally transitive) relation between a part and its distinct whole.
equivalent to: OBO_REL:proper_part_of
sub property of: is part of
subset: core

isomerization reaction
subclass of: chemical reaction
type: Class
description: An isomerization reaction is a chemical reaction in which a molecule is converted into its isomer.

decreased
type: Class
equivalent to: PATO:0002301
subclass of: abnormal
description: A quality that has a value that is decreased compared to normal or average.

to reduce energy
description: to reduce energy is the capability to remove energy from a source.
subclass of: to change energetically
type: Class

vertical line
type: Class
description: A vertical line is a line that is positionally oriented perpendicular to the horizon.
subclass of: positionally oriented line

has annotation
sub property of: has attribute
description: has annotation is a relation between an entity and some textual anntotation.
alternative: was annotated with
alternative: is annotated with
range: language entity
example: document x is annotated with the keywords 'ontology','semantic web'
type: ObjectProperty

microRNA (miRNA)
subclass of: non-protein coding RNA (ncRNA)
type: Class
description: A microRNA (abbreviated miRNA) is a small non-coding RNA molecule (containing about 22 nucleotides) found in plants, animals and some viruses, that functions in RNA silencing and post-transcriptional regulation of gene expression.
alternative: miRNA

displacement reaction
description: A displacement reaction is an inorganic reaction in which a elementary substance displaces and sets free a constituent atom from a molecule.
type: Class
subclass of: inorganic reaction

catalyzed reaction
type: Class
subclass of: Restriction
  some values from: catalyst
  on property: has agent
subclass of: chemical reaction
description: A catalyzed reaction is a chemical reaction that is facilitated by a catalyst.

union
subclass of: list
description: A union is a list of all of the values of an attribute for the entities in the defined set.
type: Class
disjoint with: intersection

acknowledgements section
type: Class
description: An acknowledgements section is a document section that identifies individuals, groups or organizations for their support in the development of the work.
subclass of: document section

antiport enabled secondary active transport
description: antiport enabled secondary active transport is a secondary active transfort in which both ion and molecule are transported in opposite directions simultaneously.
subclass of: secondary active transport
type: Class

cell (informational)
subclass of: computational entity
subclass of: Restriction
  on property: refers to
  some values from: entity
type: Class
description: The minimal unit of a cellular automaton that can change state and has an associated behavior.

positive charge
disjoint with: negative charge
type: Class
subclass of: complete charge
description: A positive charge is a charge where the value is positive.

molecular entity role
type: Class
subclass of: Restriction
  on property: is role of
  some values from: molecule
subclass of: chemical entity role
description: A molecular entity role is a chemical entity role held by a molecule.

to be modified
description: to be modified is the capability to be actively interacted with in such a way that it leads to a physical reconfiguration.
type: Class
subclass of: to be actively interacted with

student
type: Class
description: A student is an individual who is attends an educational institution.
subclass of: academic

author section
description: An author section is a document section that lists the contributing authors.
subclass of: document section
type: Class

surprise
description: surprise is a brief emotion experienced as the result of an unexpected event.
subclass of: positive emotion
type: Class

in relation from
sub property of: is referred to by
description: a in relation from b is a comparative relation in a is the object of reference in a relation with b.
type: ObjectProperty

dendrogram
subclass of: tree diagram
type: Class
description: A dendrogram is a tree diagram used to illustrate the arrangement of the clusters produced by hierarchical clustering.

RNA transcript component
subclass of: Restriction
  on property: is part of
  some values from: messenger RNA
subclass of: nucleic acid part
subclass of: Restriction
  some values from: RNA transcript
  on property: is proper part of
type: Class
description: An RNA transcript component is a region of an RNA transcript.

unutrium atom
subclass of: atom
type: Class

male
description: male is a biological sex of an individual with male sexual organs.
disjoint with: female
subclass of: biological sex
type: Class
equivalent to: PATO:0000384

generation number
subclass of: count
description: generation number is a count of the number of biological reproduction events elapsed from some starting reference point.
type: Class

binary compound
description: A binary compound is a mereological maximum sum of two kinds of weakly connected entities.
type: Class
subclass of: Restriction
  on class: molecule
  qualified cardinality: 2
  on property: has direct part
subclass of: chemical substance

is subsequent version of
type: ObjectProperty
sub property of: is version of
description: A is subsequent version of B iff A is a variant of B and A derives from B.

is target in
example: glucose is a target in the hexokinase-mediated conversion of glucose to glucose-6-phosphate.
type: ObjectProperty
sub property of: is input in
description: is target in is a relation between an entity and a process, where the entity is present at the beginning of the process and undergoes a change or transformation in the process.

represents
type: ObjectProperty
sub property of: refers to
description: a represents b when a serves as a sign, symbol or model of b.
subset: core

end date
description: An end date is a time instant pertaining to date of the end of a process.
subclass of: time instant
type: Class

stack graph
subclass of: statistical graph
description: A stack graph is a statistical graph which presents multiple series in which the distance between one series and another indicates the relative contribution to the total for any x-value.
type: Class

date of database submission
subclass of: time instant
type: Class
description: A date of database submission refers to the moment in time in which some information was submitted/received to a database system.

resentment
subclass of: disgust
description: resentment is disgust directed toward a higher status individual.
type: Class

dataset
subclass of: Restriction
  some values from: file
  on property: has concretization
subclass of: data item
description: A dataset is a data item that is a collection of data items.
alternative: data set
equivalent to: http://www.w3.org/ns/dcat#Dataset
equivalent class: Class
  intersection of: data item
  intersection of: Restriction
    on property: has member
    all values from: data item
type: Class

primary active transport
subclass of: active transport
type: Class
description: primary active transport, also called direct active transport, directly uses energy to transport molecules across a membrane.
disjoint with: secondary active transport

structural quality
subclass of: object quality
description: A structural quality is a quality of an object that describes its structure.
type: Class

is narrower than
description: A is narrower than B iff the meaning of term A is narrower in scope than the meaning of term B
equivalent to: http://www.w3.org/2004/02/skos/core#broader
inverse of: is broader than
type: ObjectProperty
sub property of: is narrower than (t)

database cross-reference
alternative: dbxref
subclass of: association
description: A database cross-reference is an association between one data item and another.
type: Class

selenium atom
type: Class
subclass of: atom

single bond
type: Class
subclass of: covalent bond
description: A single bond is a covalent bond between a pair of atoms in which one pair of electrons are shared.

standard deviation
type: Class
subclass of: quantity
description: A standard deviation (represented by the symbol σ) is the quantity of variation from the average (mean, or expected value).

translation
type: Class
description: translation is the process of producing a polypeptide from a ribonucleic acid by a ribosome.
subclass of: Restriction
  some values from: ribonucleic acid
  on property: has input
subclass of: Restriction
  on property: has product
  some values from: polypeptide
subclass of: biosynthesis

secondary graph title
subclass of: Restriction
  on property: is direct part of
  some values from: statistical graph
subclass of: primary title
description: A secondary graph title is a secondary title that describes a statistical graph.
type: Class

is supported by
description: is supported by is a relation between a proposition and something that supports the truth of the assertion.
inverse of: is supporting evidence for
type: ObjectProperty
sub property of: has evidence

embarassment
description: Embarrassment is the emotion of intense discomfort with oneself, experienced upon having a socially unacceptable act or condition witnessed by or revealed to other.
subclass of: negative emotion
type: Class

verbal language entity
description: A verbal language entity is a language entity that is manifested through sound.
subclass of: language entity
type: Class

cites
type: ObjectProperty
sub property of: references
description: cites is a relation to refer to by way of example, authority or proof.
inverse of: is cited by

to be recorded
subclass of: Restriction
  some values from: to record
  on property: is mutual disposition of
subclass of: to be observed
type: Class
description: to be recorded is the capability of an object to be observed in such a way that information about it can be transcribed in a specified format on some physical medium.

process status
subclass of: Restriction
  some values from: process
  on property: is attribute of
subclass of: process quality
description: process status is a process quality that describes the state of a process.
type: Class

existence quality
description: existence quality is the quality of an entity that describe in what environment it is known to exist.
type: Class
subclass of: quality

to be passively interacted with
subclass of: to be interacted with
subclass of: Restriction
  some values from: to passively interact with
  on property: is mutually related to
description: to be passively interacted with is the capability of an object to be observed.
type: Class

deoxyribonucleic acid sequence
subclass of: Restriction
  on property: is about
  some values from: deoxyribonucleic acid
subclass of: biopolymer sequence
description: A deoxyribonucleic acid sequence is a symbolic sequence of deoxyribonucleic acid residues in a deoxyribonucleic acid.
alternative: DNA sequence
type: Class

is numerically comparable to
description: is numerically comparable to is a comparison relation between two quantities whose datatype value can be compared.
domain: quantity
range: quantity
sub property of: is comparable to
type: ObjectProperty
type: SymmetricProperty

software entity
subclass of: computational entity
type: Class
description: A software entity is a computational entity that can be interpreted by or directly executed by a processing unit.

intervention group
subclass of: study group
type: Class
description: An intervention group is a group of individuals that are subject to an intervention.

polygon
description: A polygon is a planar entity that is bounded by a closed path or circuit, composed of a finite connected sequence3 of straight line segments.
type: Class
subclass of: geometric entity

to extract
description: to extract is the capability to remove certain entities based on selected attribute(s) while allowing other entities to remain.
subclass of: to separate
type: Class

has value
subset: sadi
subset: core
subset: relations
subset: nlp
type: DatatypeProperty
type: FunctionalProperty
description: A relation between a informational entity and its actual value (numeric, date, text, etc).

to conformationally inhibit
type: Class
description: to conformationally inhibit is to modify the conformation of an entity in such a way that it functionally is reduced or inhibited.
subclass of: to modify conformation of

allele
subclass of: gene
subclass of: Restriction
  on property: is variant of
  some values from: gene
type: Class
description: An allele is one of a set of sequence variants of a gene.

fax number
description: a fax number is a number to connect to fax device
subclass of: telephone number
type: Class

syndrome
subclass of: description
description: A syndrome is composed of a set of several clinically recognizable features, signs (observed by someone other than the patient), symptoms (reported by the patient), phenomena or characteristics that often occur together.
type: Class

surface normal
subclass of: vector line
description: A surface normal is a vector that is perpendicular to a flat surface.
type: Class

magazine
type: Class
subclass of: periodical
equivalent to: http://purl.org/ontology/bibo/Magazine
description: A magazine is a periodical that typically contains essays, stories, poems, etc., by many writers, and often photographs and drawings, frequently specializing in a particular subject or area, as hobbies, news, or sports.

to disassociate
description: to disassociate is to cease or break association with some thing.
type: Class
subclass of: to modify

is generalization of
type: ObjectProperty
description: is generalization of is a relation between a more general instance (in terms of spatial/temporal localization & other attributres) than the other.
sub property of: is variant of

scientific data
subclass of: data item
type: Class
description: scientific data is data obtained from some scientific procedure.

has agent
equivalent to: OBO_REL:has_agent
description: has agent is a relation between a process and an entity, where the entity is present throughout the process and is a causal participant in the process.
subset: sadi
subset: core
type: ObjectProperty
sub property of: has participant

social structure
subclass of: social entity
subclass of: Restriction
  all values from: object
  on property: has member
description: A social structure is a social entity which consists of relationships between two or more entities.
type: Class

increased object production from increased regulation
subclass of: regulation of object production
type: Class
description: increased regulation leads to an increase in the number of target objects of a specified type.

evidence
description: evidence is the body of facts or information indicating whether a belief or proposition is true or valid.
subclass of: proposition
type: Class

communicating
alternative: communication
description: communicating is the process of conveying information through the exchange of thoughts, messages, or information, as by speech, visuals, signals, writing, or behaviour.
type: Class
subclass of: interacting

target
type: Class
equivalent class: Class
  intersection of: molecule
  intersection of: Restriction
    on property: is target in
    some values from: process

discussion section
description: The discussion section is a document section containing a summary of the findings, a reflection on the significance of findings, comparison with related work, among others.
subclass of: document section
type: Class

vowel
description: A vowel is a verbal entity of language that is pronounced with an open vocal tract so that there is no build-up of air pressure at any point above the glottis.
subclass of: verbal language entity
type: Class

very dissatisfied qualifier
subclass of: satisfaction qualifier
type: Class

molecular identifier
subclass of: chemical identifier
description: A molecular identifier is an identifier for a molecular entity.
type: Class

to assemble
description: to assemble is the capability to combine entities together into a larger object that persists in time.
type: Class
subclass of: to actively interact with

host role
subclass of: chemical substance role
type: Class
description: The role of an organism in providing resources to maintain the survival and/or reproduction of another organism.

apprehension
subclass of: negative emotion
type: Class
description: apprehension is the negative emotion that something unpleasant will occur.

dipole-dipole interaction
description: A dipole-dipole interaction is a weak submolecular interaction between strongly electronegative atoms.
subclass of: weak submolecular component
type: Class

is causally related with
sub property of: is spatiotemporally related to
description: A transitive, symmetric, temporal relation in which one entity is causally related with another non-identical entity.
subset: core
type: SymmetricProperty
type: ObjectProperty
type: TransitiveProperty

has trigger
type: ObjectProperty
description: has trigger is a relation between a realizable and the factor that causes it to be realized.
inverse of: is trigger for
sub property of: is causally related to

to be examined
type: Class
description: to be examined is the capability of an object to be observed in a detailed manner.
subclass of: to be observed

decreased molecular production from decreased regulation
type: Class
description: A process that decreases the frequency, rate or extent of process involved in the production of a molecule as a result of decreased regulation.
subclass of: regulation of molecular production

homonym
description: A homonym is a word that sounds the same but has different meaning.
type: Class
subclass of: term variant
subclass of: Restriction
  on property: is dissimilar to
  some values from: term

sadness
type: Class
alternative: sad
alternative: unhappiness
alternative: unhappy
description: sadness is emotional pain associated with, or characterized by feelings of disadvantage, loss, despair, helplessness, sorrow, and rage.
subclass of: negative emotion

beryllium atom
type: Class
subclass of: atom

quality
type: Class
subset: core
disjoint with: realizable entity
description: 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.
subclass of: Restriction
  on property: is quality of
  some values from: entity
subclass of: attribute

heterozygous
subclass of: zygosity
description: homozygous is the quality of a biological organism in which there are two different alleles at a given locus.
type: Class

references
sub property of: refers to
description: references is a relation between one entity and the entity that it makes reference to by name, but is not described by it.
subset: core
type: ObjectProperty
alternative: mentions

planned
type: Class
subclass of: not started
description: planned is a process status for a process that has not yet started, but is referred to in a plan.

toxic
type: Class
disjoint with: non toxic
subclass of: toxicity
description: toxic is the quality of a substance imparing the normal functioning of a system.

study
subclass of: Restriction
  some values from: objective
  on property: realizes
subclass of: Restriction
  some values from: study design
  on property: is manifestation of
subclass of: investigation
type: Class
description: A study is a process that realizes the steps of a study design.

is data item in
subset: core
range: dataset
description: 'is data item in' is a relation between an entity that is described or referenced in a dataset.
type: ObjectProperty
sub property of: refers to

dose
type: Class
subclass of: dimensional quantity
description: A dose is the quantity of a chemical substance administered to a biological system.

global minimal stationary point
subclass of: local minimum stationary point
type: Class
description: A global minimum data point is a data point that corresponds to a measurement value is smaller than that of all other plotted datapoints.

descriptor
type: Class
description: A descriptor (index term, subject term, subject heading) is a term that captures the essence of the topic of a document.
subclass of: term

receptor
subclass of: signal transducer
description: A receptor molecule is a molecule that has the capability to bind to a signal and propogate a response to that signal.
type: Class

to be transported
description: to be transported is the disposition to undergo motion.
type: Class
subclass of: to be actively interacted with

polygon vertex
subclass of: node
subclass of: Restriction
  min qualified cardinality: 2
  on class: polygon edge
  on property: is component part of
subclass of: Restriction
  on property: has component part
  qualified cardinality: 1
  on class: vertex normal
type: Class
description: A polygon vertex is a terminal point at which two polygon edges meet and are part of a polygon.

formal specification
type: Class
description: A formal specification is a mathematical description of software or hardware that may be used to develop an implementation.
subclass of: functional specification

maintenance of duration of process
description: maintenance of duration of process is a process that regulates a target process to maintain its duration within an expected interval.
subclass of: regulation of process duration
type: Class

interest
type: Class
subclass of: positive emotion
description: interest is the emotion of wanting to know or learn about something or someone.

messenger
type: Class
subclass of: signal transducer
description: A mesenger is a molecule involved in either signal detection or signal propagation from receptors on the cell surface to target molecules inside the cell, in the cytoplasm or nucleus.

increased molecular degradation from increased regulation
subclass of: regulation of molecular degradation
description: A process that increases the frequency, rate or extent of process involved in the destruction of a molecule as a result of increased regulation.
type: Class

ingredient
description: an ingredient is a chemical substance that forms part of a mixture.
equivalent class: Class
  intersection of: chemical substance
  intersection of: Restriction
    some values from: chemical substance
    on property: derives into
subclass of: chemical substance
type: Class

boxplot
description: A boxplot (box-and-whisker diagram) is a convenient way of graphically depicting groups of numerical data through their five-number summaries: the smallest observation (sample minimum), lower quartile (Q1), median (Q2), upper quartile (Q3), and largest observation (sample maximum).
type: Class
subclass of: line-bar graph

deductive argument
description: A deductive argument is an argument that asserts that the truth of the conclusion is a logical consequence of the premises.
type: Class
subclass of: argument

exclusive disjunction (xor)
description: XOR, also called exclusive disjunction or (symbolized XOR, EOR, EXOR, or ⊕), is a type of logical disjunction on two operands that results in a value of true if exactly one of the operands has a value of true.
type: Class
subclass of: disjunction (or)

gene-disease biomarker association
subclass of: gene-disease association
description: A gene-disease association in which the gene/protein is involved in the etiology or maintenance of the disease.
type: Class

city
description: A city is a relatively large and permanent settlement.
type: Class
subclass of: geopolitical region

unit of measurement
type: Class
description: A unit of measurement is a definite magnitude of a physical quantity, defined and adopted by convention and/or by law, that is used as a standard for measurement of the same physical quantity.
subclass of: quantity

chemical effect
subclass of: Restriction
  on property: has agent
  some values from: drug
subclass of: chemical interaction
description: A chemical effect is a chemical interaction in which a chemical elicits a marked characteristic of a biological system.
type: Class

algorithm
description: An algorithm is an effective method expressed as a finite list of well-defined instructions for calculating a function.
subclass of: mathematical entity
type: Class

is end time of
type: ObjectProperty
sub property of: is time boundary of
domain: time instant

hunger
type: Class
description: hunger is the craving for food.
subclass of: negative emotion

molecular complex formation
type: Class
subclass of: chemical synthesis
subclass of: Restriction
  on property: has product
  some values from: molecular complex
description: molecular complex formation is the process of forming a molecular complex from its constituent parts.

mutual disposition
type: Class
subclass of: disposition
description: A mutual disposition is a disposition that simulataneously invokes another disposition when realized.

curvature
subclass of: shape
description: curvature is a quality of a bearer that relates to the presence of curves, bends, or angles.
type: Class

depression
description: depression is an unpleasant emotion linked to aversion to activity that can affect a person's thoughts, behavior, feelings and physical well-being. Depressed individuals may feel sad, anxious, empty, hopeless, worried, helpless, worthless, guilty, irritable, or restless.
type: Class
subclass of: sadness
alternative: depressed

is regulated by
sub property of: is causally related from
type: ObjectProperty

book volume
description: A book volume is a book that is part of a collection.
type: Class
subclass of: book

symbolic sequence
type: Class
comment: A symbolic sequence is a data item that encodes a finite, ordered list of symbols drawn from a specified alphabet, where the identity and position of each symbol are essential to the meaning of the sequence.
subclass of: data item

patent
description: A patent is an information entity granted by a patent issuing authority which confers upon the patenter the sole right to make, use and sell an invention for a set period of time.
subclass of: legal document
type: Class

SOAP web service
subclass of: web service
description: a SOAP web service is a web service that implements Simple Object Access Protocol (SOAP).
type: Class

attribute
subclass of: entity
subclass of: Restriction
  on property: is attribute of
  some values from: entity
type: Class
description: An attribute is a characteristic of some entity.
subset: core

buffer role
subclass of: Restriction
  some values from: buffer
  on property: is role of
subclass of: chemical substance role
type: Class
description: A buffer role is the role of a chemical substance which maintains a pH at a near constant value.

terminology
type: Class
description: A terminology is a set of terms used for a specified application.
subclass of: vocabulary

page total
type: Class
subclass of: count
description: A page total is a textual entity that is about the number of pages in some informational entity.

disposition
description: A disposition is the tendency of a capability to be exhibited under certain conditions or in response to a certain stimulus (trigger).
subclass of: Restriction
  on property: has attribute
  some values from: probability measure
subclass of: capability
type: Class
example: solubility (to dissolve when put in fluid); fragility (disposition to break when dropped)
subset: core

race
description: race is a characteristic of an individual by heritable phenotypic characteristics, geographic ancestry, physical appearance, ethnicity, and social status.
subclass of: biological quality
type: Class

data series
description: A data series is a data set composed of related values displayed in a statistical graph.
type: Class
example: Example: The two series that correspond to "Seasonally adjusted" and "Trend" are composed of the seasonally adjusted value of permits in each month and values from a trend derived from some mathematical tranformation across those values, respectively, in Graph 1 of http://tinyurl.com/opwnvm
subclass of: list

heterogeneous substance
subclass of: chemical substance
type: Class
description: A heterogeneous substance is a chemical substance that is composed of more than one different kind of component.
disjoint with: homogeneous substance

representation
subclass of: information content entity
subclass of: Restriction
  on property: is model of
  some values from: entity
type: Class
description: A representation is a entity that in some way represents another entity (or attribute thereof).

immediately transforms into
description: A temporal relation in which an entity mainstains identity from one state to another.
sub property of: transforms into
inverse of: is immediately transformed from
type: ObjectProperty

amino acid residue
type: Class
subclass of: Restriction
  on property: is derived from
  some values from: amino acid
subclass of: amino acid polymer submolecule
description: An amino acid residue is a submolecule of an amino acid that is part of a larger molecule.

pain
type: Class
description: Pain is an unpleasant sensory and emotional experience associated with actual or potential tissue damage, or described in terms of such damage.
subclass of: hurt

reproducing
subclass of: creating
subclass of: Class
  intersection of: Restriction
    some values from: object
    on property: has input
  intersection of: Restriction
    some values from: object
    on property: has product
type: Class
description: reproducing is a process characterized by creation of an entity that is similar or exactly the same as the template from which it is derived.

velocity
type: Class
subclass of: speed
description: The rate of change of an object's position and the direction of that change

textual chart
type: Class
subclass of: Restriction
  on property: has direct part
  some values from: textual entity
subclass of: chart
description: A textual chart is a chart containing text.

is frequency of
type: ObjectProperty
description: is frequency of is a relation between a temporal unit and an object or event
sub property of: is measurement value of

is broad match to
equivalent to: http://www.w3.org/2004/02/skos/core#broadMatch
type: ObjectProperty
type: SymmetricProperty
sub property of: is match to

truth value
equivalent class: Class
  union of: true
  union of: false
type: Class
subclass of: informational quality
description: truth value is a quality of information that is claimed/verified to be true or false.

dysprosium atom
type: Class
subclass of: atom

edited publication
type: Class
description: An edited publication is a publication that has been examined and potentially changed by an editor.
subclass of: publication

document title
description: A document title is a textual entity that summarizes the topic of the document in one sentence.
type: Class
subclass of: title

strong chemical salt
type: Class
subclass of: chemical salt
description: a strong chemical salt is a chemical salt that is composed of strong electrolytes. Strong chemical salts contain Na,K,NH4 or NO3, CIO4, CH3COO.

is expression of
type: ObjectProperty
example: every language edition of 'war of the worlds' are expressions of the story of 'war of the worlds'
description: is expression of is a relation between more concrete expression of some conceptualization.
sub property of: is generically related with

brownian motion
subclass of: diffusion
description: Brownian motion is the seemlingly random movement of particles suspended in a fluid.
type: Class

web page
type: Class
description: A web page is a document that is published according to World Wide Web standards.
subclass of: document

to characterize
type: Class
subclass of: to describe
description: to characterize is the capability to classify the attributes or features of an entity against a reference classification.

statistical graph line
subclass of: line
type: Class
description: A statistical graph line is a line used in a statistical graph to communicate some trend or feature of the embedded data.

is specified by
sub property of: is causally related with
sub property of: is described by
description: a relation between a product and the information content entity that specifies it.
type: ObjectProperty

meitnerium atom
type: Class
subclass of: atom

definition
type: Class
description: A definition is a description that succintly characterizes an entity.
subclass of: description

predicted
subclass of: hypothetical
type: Class
description: predicted is the quality of an entity that is thought to exist, as evidenced by some rational procedure.

very good quality
subclass of: quality descriptor
type: Class

is encoded by
sub property of: is specified by
description: A relation between two objects, in which the first object is produced from the information contained in the second object.
type: ObjectProperty

3D extent quantity
type: Class
description: A quantity that extends in three dimensions.
subclass of: spatial quantity

nitrogen atom
subclass of: atom
type: Class

information maintenance
type: Class
alternative: regulation of information
description: the regulation or maintenance of information
subclass of: process maintenance

sequence alignment
type: Class
subclass of: collection
description: A sequence alignment is the character-based alignment of sequences using some method.

amino acid polymer
description: an amino acid polymer is an organic polymer composed of two or more amino acid residues.
subclass of: Restriction
  on class: amino acid residue
  on property: has direct part
  min qualified cardinality: 2
subclass of: organic polymer
type: Class

increased duration of process from increased regulation
description: increased duration of process from increased regulation is a process in which the duration of the target process is increased as a result of increased regulation.
type: Class
subclass of: regulation of process duration

regulation of catalytic capability
subclass of: regulation of capability
subclass of: Restriction
  some values from: to change materially
  on property: regulates
description: the regulation of the enzymatic activity.
type: Class

polygonal face
subclass of: geometric entity
subclass of: Restriction
  on property: is part of
  some values from: polygon
type: Class
description: A polygonal face is a polygon bounded by a circuit of polygon edges, and includes the flat (plane) region inside the boundary.

berkelium atom
type: Class
subclass of: atom

number
subclass of: scalar
description: A number is a tensor of rank 0.
type: Class
alternative: rank 0 tensor

to gain an electron
subclass of: to be electronically modified
description: to gain an electron is the capability of a chemical entity to receive an electron.
type: Class

genetic polymorphism
type: Class
description: genetic polymorphism is the description of a difference in genetic composition at some location.
subclass of: nucleic acid part

study group
type: Class
subclass of: collective
description: A study group is a group of individuals that are subjects in an observational or intervention study.

tantalum atom
type: Class
subclass of: atom

is derived from
type: TransitiveProperty
type: ObjectProperty
equivalent to: OBO_REL:derives_from
subset: core
sub property of: is causally related from
inverse of: derives into
description: A transitive temporal relation in which one entity was materially formed from another non-identical entity.

keyword
description: A keyword is a descriptor in which the association of the word with the entity facilitates information retrieval.
type: Class
subclass of: descriptor

bar
description: A bar is a rectangle that is located in the plot of a statistical graph in which its length is proportional to the values that it represents.
subclass of: rectangle
type: Class

radium atom
subclass of: atom
type: Class

small nuclear RNA (snRNA)
description: A small nuclear RNA (snRNA) is a small RNA molecule that is located in the nucleus of a cell.
subclass of: non-protein coding RNA (ncRNA)
type: Class
alternative: snRNA

model
subclass of: representation
subclass of: Restriction
  some values from: entity
  on property: represents
description: A model is a representation of some thing.
type: Class

quadrilateral
subclass of: polygon
type: Class
description: A quadrilateral is a polygon with composed of four points and four line segments, in which each point is fully connected to two other points.

completely quantifier
subclass of: quantity modifier
type: Class

germanium atom
subclass of: atom
type: Class

shame
type: Class
subclass of: negative emotion
description: shame is the emotion borne from feeling responsible for the commission of an offense.

nomimal scale
description: A nominal scale of measurement only specifies a limited set of categories.
type: Class
subclass of: measurement scale

global maximal stationary point
description: A global maximum stationary point is a data point that corresponds to a measurement value is larger than that of all other plotted datapoints.
subclass of: local maximum stationary point
type: Class

category axis
type: Class
disjoint with: value axis
equivalent class: Class
  union of: primary category axis
  union of: secondary category axis
subclass of: axis
example: The horizontal axis corresponding to months of the year in graph 4 of http://tinyurl.com/opwnvm
description: A category axis is an axis in which the position along the line is partioned into categories.

to measure
type: Class
subclass of: to investigate
description: to measure is the capability to obtain information about some entity by examining its attributes in relation to some reference metric.

negatively regulates
description: x negatively regulates y if and only if x is a process and y is either a process or a quality, and the progression of x exerts an reduced effect on the frequency, rate or extent of y
sub property of: regulates
type: ObjectProperty

control role
description: A control role is the role of an individual that is part of a study, but is not subject to the intervention that is to be tested.
subclass of: evaluation role
type: Class

DisGeNET disease specificity
subclass of: ratio
description: DisGeNET Disease specificity is a measure of disease coverage. It is calculated from the negative base 2 log of the ratio of number of diseases associated to the total number of diseases. The measure is described here: http://www.disgenet.org/web/DisGeNET/menu/dbinfo#specificity
type: Class

1D cartesian point
description: A 1D cartesian point is a point whose position is specified along a single dimension using Cartesian coordinates.
type: Class
subclass of: point
equivalent class: Class
  intersection of: point
  intersection of: Restriction
    on property: has component part
    all values from: z cartesian coordinate
  intersection of: Restriction
    on property: has component part
    qualified cardinality: 1
    on class: z cartesian coordinate

diary
subclass of: document
description: A diary is a document which describes day-to-day experiences.
type: Class

student role
disjoint with: professor role
subclass of: Restriction
  on property: is role of
  some values from: student
subclass of: academic role
description: A student role is the role of an individual that is enrolled in courses at an academic institution.
type: Class

Semanticscience Integrated Ontology (SIO)
version info: 1.61
version info: sio-subset-dash-labels.owl
cites as authority: http://www.jbiomedsem.com/content/5/1/14
creator: http://orcid.org/0000-0003-4727-9435
description: The semanticscience integrated ontology (SIO) provides a simple, integrated ontology (types, relations) for objects, processes and their attributes. This project provides foundational support for the Bio2RDF (http://bio2rdf.org) and SADI (http://sadiframework.org) projects. website: http://semanticscience.org email: sio-ontology@googlegroups.com mailing list: http://groups.google.com/group/sio-ontology
rights: free to use,share,modify. modify with attribution [http://creativecommons.org/licenses/by/4.0/].
modified: 2026-05-01
default language: en
comment: general class inclusion axioms: 'is part of' some 'physical entity' subClassOf 'is located in' some 'physical entity' role chains: 'has capability' o 'is realized in' -> 'is participant in'
creator: Michel Dumontier
preferred namespace prefix: sio
license: http://creativecommons.org/licenses/by/4.0/
issued: 2010-03-29
type: Ontology
contributor: Contributors are those that engage in discussions in the context of SIO (in alphabetical order): sivaram arabandi christopher baker joachim baran jerven bolleman matthew brush alison callahan leonid chepelev kevin cohen melanie courtot geraint duck laura furlong elisa kendall tatsuya kushida luke mccarthy jim mccusker jose miguel cruz-toledo chris mungall robert hoehndorf simon jupp jin-dong kim dana klassen thomas luetteke james malone chris mungall david osumi-sutherland tazro ohta nuria queralt stephen reed alexandre riazanov matthias samwald robert stevens mark wilkinson karin verspoor natalia villanueva-rosales
preferred namespace uri: http://semanticscience.org/resource/
version IRI: sio-subset-dash-labels.owl

movement
type: Class
description: movement is the process in which an object is spatially displaced.
subset: core
subclass of: process

dna gene
disjoint with: rna gene
type: Class
description: A gene that is located on DNA.
subclass of: gene
subclass of: Restriction
  some values from: deoxyribonucleic acid
  on property: is proper part of

has measurement value
description: has measurement value is a relation between a quality/realizable and a measurement value.
subset: core
type: ObjectProperty
range: measurement value
sub property of: has attribute

regulation of capability
subclass of: Restriction
  on property: affects
  some values from: capability
subclass of: regulating
type: Class
description: regulation of capability is the regulation of the ability of one party by another.

antigen
type: Class
subclass of: molecule
description: An antigen is a molecule that can be bound by a major histocompatibility complex (MHC) and presented to a T-cell receptor.

specific gravity
type: Class
description: Specific gravity is the ratio of the density of a substance to the density of a reference substance; equivalently, it is the ratio of the mass of a substance to the mass of a reference substance for the same given volume.
subclass of: ratio

valid argument
subclass of: argument
subclass of: Restriction
  some values from: Class
    intersection of: conclusion
    intersection of: Restriction
      some values from: false
      on property: has quality
  on property: has proper part
description: A valid argument is an argument where the truth of the conclusion is a logical consequence of the premises and (consequently) its corresponding conditional is a necessary truth.
type: Class

likelihood
subclass of: quantity
description: Likelihood is the hypothetical probability that an event that has already occurred would yield a specific outcome.
type: Class

strong submolecular component
description: A strong submolecular component is a submolecular component that strongly connects submolecular components.
subclass of: submolecular entity
type: Class

to be observed
subclass of: to be passively interacted with
subclass of: Restriction
  on property: is mutual disposition of
  some values from: to observe
type: Class
description: to be observed is the capability of an object to be perceived.

data collection
subclass of: Restriction
  some values from: data item
  on property: has product
subclass of: information processing
type: Class
description: data collection is the process of acquiring information.

community
type: Class
subclass of: collective
description: A community is a sizeable social unit that shares common values.

anger
description: anger is disgust directed toward an equal status individual.
type: Class
subclass of: disgust

microarray device
subclass of: data collection device
type: Class
description: A microarray device is a device that identifies the binding of a target substance to a physically immobile substrate placed in an array or lattice.
alternative: microarray platform
similar to: http://purl.obolibrary.org/obo/OBI_0000052

hole
description: A hole is a site that is opening into or through something.
subclass of: site
type: Class

lawrencium atom
type: Class
subclass of: atom

zygosity
subclass of: biological quality
description: zygosity is the quality pertaining to the allelic complement of a biological system at a single locus on the DNA.
type: Class

correlation
subclass of: statistical association
description: A correlation is a statistical relationship involving dependence between two random variables or datasets.
type: Class

local maximum stationary point
type: Class
description: A local maximum stationary point is a point that has a higher value in some axis than adjacent points.
subclass of: stationary point

to emit
type: Class
subclass of: to reduce energy
description: to emit is the capability to release some physical entity (light, pollution, etc).

diagnosis
type: Class
description: A diagnosis is the result of a medical investigation to identify a disorder from its signs and symptoms.
subclass of: conclusion

biochemical activation
disjoint with: biochemical inhibition
subclass of: Restriction
  on property: realizes
  some values from: to decrease the rate of formation
subclass of: regulation of catalytic capability
description: biochemical activation is a molecular interaction that increases the catalytic rate of the target enzyme.
type: Class

affiliation
subclass of: social relation
type: Class
description: An affiliation is a social relation which indicates the partnership between two or more entities.

is identifier for
domain: identifier
type: ObjectProperty
sub property of: is attribute of
alternative: identifies
description: a relation between an identifier and an entity.

amino acid
subclass of: organic molecule
type: Class
description: An amino acid is an organic molecule composed of a carbon bonded to four different groups: a carboxyl group, an amino group, an R group, and a hydrogen atom. In the case of glycine, the R group is another hydrogen atom.

has provider
type: ObjectProperty
sub property of: has source
equivalent to: dc:source
description: is provided by is a relation between an entity and the entity that provides it.

slideshow
subclass of: Restriction
  on property: has proper part
  some values from: slide
subclass of: media
description: A slideshow is a visual presentation of information contained within a collection of slides.
type: Class

has evidence
sub property of: references
type: ObjectProperty
inverse of: is evidence for
description: has evidence is a relation between a proposition and something that demonstrates the truth of the assertion.

specialized material entity
description: A specialized material entity is a material entity that is defined by having some quality, role or capability.
subclass of: specialized object
type: Class
equivalent class: Class
  intersection of: material entity
  intersection of: Restriction
    on property: has realizable property
    some values from: realizable entity

to infect
subclass of: to inject
type: Class
description: to infect is the capability to administer a disease-causing organism into some object.

address
type: Class
subclass of: positional identifier
description: An address is a position that indicates the physical location of some entity using a social convention.

centrifugation substance
description: A centrifugation substance is a substance that is the target or product of centrifugation.
subclass of: chemical substance
type: Class

last name
subclass of: name
description: A last name (surname) is a name added to a given name and is part of a personal name and is often the family name.
type: Class

metabolic pathway
type: Class
disjoint with: regulatory pathway
description: A metabolic pathway is a series of biochemical reactions that begins with one or more substrates and ends with one or more products.
subclass of: biochemical pathway

horizontal bar graph
subclass of: bar graph
description: A horizontal bar graph is a bar graph in which the rectangular bars are horizontally oriented in space.
type: Class
example: Graph 3 in http://tinyurl.com/opwnvm

volume
description: volume is the quantity of three-dimensional space enclosed by some closed boundary.
type: Class
subclass of: 3D extent quantity

chlorine atom
type: Class
subclass of: atom

ion
type: Class
subclass of: chemical entity
equivalent class: Class
  intersection of: Class
    union of: atom
    union of: molecule
  intersection of: Restriction
    on property: has quality
    some values from: charge quality
description: An ion is an atom or molecule in which the total number of electrons is not equal to the total number of protons, giving it a net positive or negative electrical charge.

homogeneous substance
description: A homogeneous substance is a substance that is composed of a uniform type of entity.
subclass of: chemical substance
type: Class

environment
type: Class
description: An environment is a geographic region that hosts certain processes or objects.
subclass of: geographic region

is directly before
type: FunctionalProperty
type: ObjectProperty
sub property of: is positionally before
sub property of: is directly connected to
description: is directly before is a relation between entities placed on a dimensional axis in which the projection of the position of the first entity is numerically less than the projection of the position of the second entity, and the entities are adjacent to one another.

device
type: Class
subclass of: heterogeneous substance
description: A device is usually a constructed tool.

closed interval
subclass of: left closed interval
subclass of: right closed interval
example: [0,1] is a closed interval that is greater than or equal to 0 and less than or equal to 1.
type: Class
description: A closed interval is an interval that includes its endpoints, and is denoted with square brackets.

pre-mRNA
description: Precursor mRNA (pre-mRNA) is a single strand of messenger ribonucleic acid (mRNA) that is synthesized from a DNA template throught transcription.
subclass of: Restriction
  some values from: mature mRNA
  on property: derives into
subclass of: messenger RNA
type: Class

consonant
type: Class
subclass of: verbal language entity
description: A consonant is a verbal entity of language that is articulated with complete or partial closure of the vocal tract.

analyte
subclass of: chemical substance
type: Class
description: an analyte is a substance or chemical constituent of interest in an analytical procedure.

observing
description: observing is a process of passive interaction in which one entity makes note of attributes of one or more entities.
alternative: observation
subclass of: interacting
subclass of: Restriction
  on property: has input
  some values from: entity
subclass of: Restriction
  on property: has output
  some values from: entity
type: Class

statute
subclass of: legal document
description: A statute is a formal written enactment of a legislative authority that governs a state, city or country.
type: Class

intent
type: Class
description: intent is a desire to realize a particular outcome.
subclass of: desire

liquid solution component
description: A liquid solution component is a part of a liquid solution.
subclass of: heterogeneous substance
type: Class

visual language entity
subclass of: language entity
type: Class
description: A visual language entity is a language entity that is manifested within the spectrum of light and can be pereceived and processed by a visual system.

double stranded nucleic acid
subclass of: molecular complex
subclass of: Restriction
  qualified cardinality: 2
  on property: has proper part
  on class: nucleic acid
description: double stranded nucleic acid is a molecular complex composed of two weakly connected nucleic acids.
type: Class

boldness
description: boldness is the trait of being willing to undertake things that involve risk or danger.
subclass of: positive emotion
type: Class

email
subclass of: document
type: Class
description: Email message is a digital document that is composed of a header and a body and is transmitted using the SMTP protocol.

positionally oriented line
description: A positionally oriented line is a line that is positioned against some axis of reference.
type: Class
subclass of: line

virus
type: Class
subclass of: non-cellular organism
description: A virus is a non-cellular organism that can replicate only inside the living cells of an organism.

good quality
subclass of: quality descriptor
type: Class

hard disk drive
subclass of: data storage device
type: Class
description: A hard disk drive (HDD) is a non-volatile, random access device for digital data. It features rotating rigid platters on a motor-driven spindle within a protective enclosure. Data is magnetically read and written on the platter by read/write heads that float on a film of air above the platters.

small cytoplasmic RNA (scRNA) gene
description: A small cytoplasmic RNA (scRNA) gene is a gene that encodes a small (7S; 129 nucleotides) RNA molecule found in the cytosol and rough endoplasmic reticulum that are normally associated with proteins that are involved in specific selection and transport of other proteins.
subclass of: Restriction
  some values from: small cytoplasmic RNA (scRNA)
  on property: encodes
subclass of: non-protein coding RNA (ncRNA) gene
equivalent to: http://purl.obolibrary.org/obo/SO_0001266
type: Class

arsenic atom
subclass of: atom
type: Class

iron atom
type: Class
subclass of: atom

is attribute of
description: 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.
type: ObjectProperty
sub property of: is related to

author list
subclass of: ordered list
subclass of: Restriction
  some values from: Class
    intersection of: list item
    intersection of: Restriction
      some values from: ordinal position
      on property: has attribute
    intersection of: Restriction
      some values from: Class
        union of: organization
        union of: person
      on property: refers to
  on property: has proper part
type: Class
description: an ordered list of authors.

fitness
type: Class
subclass of: object quality
description: fitness is the quality of an object with respect to some stated functions or evolutionary adaptation.

vector space
type: Class
description: a vector space is a set of vectors.
subclass of: Restriction
  on property: has member
  min qualified cardinality: 0
  on class: vector
subclass of: mathematical entity

study subject
description: A study subject is an individual that is the subject of the study.
subclass of: person
type: Class

ordered list
description: an ordered list is a list in which items are sequentially ordered.
subclass of: list
subclass of: Restriction
  some values from: Class
    intersection of: list item
    intersection of: Restriction
      on property: has attribute
      some values from: ordinal position
  on property: has proper part
type: Class

regulation of process
description: regulation of a process is a process that modulates the duration, frequency, spatial extent of a target process.
type: Class
subclass of: regulating
subclass of: Restriction
  on property: regulates
  some values from: process
equivalent class: Class
  union of: regulation of process frequency
  union of: regulation of process duration
  union of: regulation of process spatial extent
  union of: regulation of object quantity

has target
inverse of: is target in
sub property of: has input
description: 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.
type: ObjectProperty

negative
subclass of: assertional qualifier
type: Class
description: negative is an assertional qualifier that expresses the falsity or lack of truth of a basic assertion.

database key
subclass of: Restriction
  some values from: Literal
  on property: has value
subclass of: Restriction
  some values from: column
  on property: has component part
subclass of: computational entity
type: Class
description: A database key is an informational entity whose value is constructed from one or more database columns.

containment quality
description: a containment quality is a quality of being able to contain another entity.
type: Class
subclass of: mereological quality

quantity
subclass of: Restriction
  some values from: entity
  on property: is measurement value of
subclass of: Restriction
  some values from: entity
  on property: is attribute of
subclass of: measurement value
equivalent class: Class
  union of: dimensionless quantity
  union of: dimensional quantity
description: A quantity is an informational entity that gives the magnitude of a property.
type: Class

reason
subclass of: justification
description: A reason is a justification that specifies the motive for an action or a determination.
type: Class

buffer
description: A buffer is a dissolved chemical substance that resists change in pH upon addition of small amounts of acid or base.
type: Class
subclass of: liquid solution component

carbohydrate residue
type: Class
subclass of: organic submolecule
subclass of: Restriction
  some values from: monosaccharide
  on property: is derived from
subclass of: Restriction
  some values from: carbohydrate
  on property: is part of
description: A carbohydrate residue is a part of a molecule that was derived from a monosaccharide molecule.

to distort
type: Class
subclass of: to change appearance
description: to distort is the capability to change the appearance of an entity by some transformation.

gene-disease association linked with genomic alterations
subclass of: gene-disease biomarker association
description: a gene-disease association that is linked with some genomic alteration
type: Class

frustration
subclass of: annoyance
description: Frustration is an emotion that arises from the perceived resistance to the fulfillment of individual will.
type: Class

therapeutic gene-disease association
type: Class
subclass of: gene-disease association
alternative: gene-disease association arising from a therapeutic role of the gene/protein
description: A gene disease association in which the gene is a therapeutic marker for the disease.

term
subclass of: language entity
subclass of: Class
  union of: word
  union of: phrase
description: A term is a word or phrase used to denote one or more entities.
type: Class

evolutionary lineage
description: evolutionary lineage is a sequence of species, that form a line of descent, each new species the direct result of speciation from an immediate ancestral species.
type: Class
subclass of: history

contains
type: ObjectProperty
type: TransitiveProperty
description: A contains B iff the spatial region occupied by A has the spatial region occupied by B as a part, and B is not part of A. [T]
sub property of: is location of

opinion
subclass of: Restriction
  some values from: medical diagnosis
  on property: is product of
subclass of: belief
type: Class
description: An opinion is a belief that is the result of emotion or interpretation of facts.

logarithmic value axis
subclass of: scaled value axis
description: A logarithmic value axis is a scaled value axis that corresponds to a scaling factor of the logarithm of the value range.
type: Class

data transformation
subclass of: Restriction
  on property: has input
  some values from: data item
subclass of: Restriction
  some values from: data item
  on property: has output
subclass of: information processing
description: data transformation is the process of applying an algorithmic procedure to some input data and producing some output data.
type: Class

streamgraph
type: Class
subclass of: stack graph
description: A streamgraph is a multi-line stacked graph that yields the appearance of continuous y-values across the x-axis.

copernicium atom
type: Class
subclass of: atom

answer
type: Class
description: An answer is a reply to a question.
subclass of: description

active movement
type: Class
description: active movement is the process in which an object is spatially displaced using some chemical energy.
subclass of: movement

is transcribed into
type: ObjectProperty
sub property of: encodes
example: DNA is transcribed into RNA
inverse of: is transcribed from
description: a relation between two information content entities in which one is transcribed into (an exact or similar kind) another through some process.

default parameter
type: Class
subclass of: parameter
description: A default parameter is a parameter which has a default value.

irritability
description: irritability is the negative emotion of quick excitability to annoyance, impatience, or anger.
alternative: irritable
subclass of: negative emotion
type: Class

exon
type: Class
description: An exon is a nucleotide sequence encoded by a gene that remains present within the final mature RNA product of that gene after introns have been removed by RNA splicing.
subclass of: gene component

roentgenium atom
type: Class
subclass of: atom

chemical exposure
type: Class
description: chemical exposure is a process to expose one or more individuals to a chemical substance.
subclass of: chemical interaction

language label
description: A language label is a label that denotes the language of a textual entity.
subclass of: label
type: Class

student advisor role
description: A student advisor role is the role of an individual employed at an academic organization that is involved in advising students.
subclass of: academic role
type: Class

has disposition
inverse of: is disposition of
type: ObjectProperty
type: InverseFunctionalProperty
description: has disposition is the relation between an entity and a disposition that it bears.
range: disposition
sub property of: has capability

phd thesis
subclass of: thesis document
description: A PhD thesis is a thesis prepared as a requirement for a doctoral degree.
type: Class

arrowed line segment
description: An arrowed line is a directed line segment in which one or both endpoints is tangentially part of a triangle that bisects the line.
subclass of: Restriction
  on property: has component part
  max qualified cardinality: 2
  on class: triangle
subclass of: Restriction
  on property: has part
  some values from: triangle
subclass of: directed line segment
type: Class

deoxyribonucleic acid primer
subclass of: primer
subclass of: Restriction
  on property: has function
  some values from: to serve as a template for DNA synthesis
subclass of: deoxyribonucleic acid
description: A deoxyribonucleic acid primer is a deoxyribonucleic acid that enables the synthesis of a complement strand of DNA by binding to it and acting as a point of transcription initiation.
type: Class

plan
type: Class
description: A plan is a set of intended actions, through which one expects to achieve a goal.
subclass of: action specification

biological sex
description: biological sex is the quality of a biological organism based on reproductive function or organs.
type: Class
subclass of: biological quality

organic reaction
subclass of: chemical reaction
type: Class
description: An organic reaction is a chemical reaction involving at least one organic molecule.

regulation of molecular degradation
subclass of: Restriction
  on property: regulates
  some values from: chemical destruction
subclass of: regulation of molecular quantity
type: Class
description: A process that modulates the frequency, rate or extent of process involved in the destruction of a molecule.

increased molecular degradation from decreased regulation
description: A process that increases the frequency, rate or extent of process involved in the destruction of a molecule as a result of decreased regulation.
subclass of: regulation of molecular degradation
type: Class

coordinate
description: A coordinate is a measurement of position in n-dimensional space.
type: Class
subclass of: position

chapter
type: Class
subclass of: document section
description: A chapter is a document section of a book or thesis.

software process identifier
type: Class
description: A software process identifier is an identifier for a software process in some operating system.
subclass of: informational entity identifier

cartesian coordinate
type: Class
subclass of: Restriction
  on property: is proper part of
  some values from: cartesian coordinate system
subclass of: coordinate
description: A Cartesian coordinate is the signed distance of a point to some referent line.
disjoint with: polar coordinate

database column
subclass of: Restriction
  some values from: database table
  on property: is proper part of
subclass of: column
type: Class
description: A database collumn is a column in a database table.

heatmap
subclass of: chart
type: Class
description: A heatmap is a graphical representation of data where the individual values contained in a matrix are represented as colors.

protein complex
description: A protein complex is a molecular complex composed of at least two polypeptide chains.
subclass of: molecular complex
subclass of: Restriction
  on class: polypeptide
  min qualified cardinality: 2
  on property: has component part
type: Class

is generically related with
sub property of: is related to
type: ObjectProperty
description: A is generically related with B iff A is an abstract entity or an information content entity and B is a information content entity or a physical entity, respectively.

to cause disease
type: Class
subclass of: to change materially
description: to cause disease is the capability to materially change a biological object in that it functions abnormally.

aromatic bond
type: Class
description: An aromatic bond is an interaction between a set of atoms across which pairs of electrons are shared.
subclass of: covalent bond

metadata
subclass of: data item
type: Class
description: metadata is data that provides information about data.

platinum atom
type: Class
subclass of: atom

synthesis reaction
description: A synthesis reaction is an inorganic reaction in which two or more molecules are chemically bonded together to produce a single product.
type: Class
subclass of: inorganic reaction

allosteric site
description: An allosteric site is a binding site that when bound to particular ligand changes the conformational state and affects its functionality.
subclass of: binding site
type: Class

to luminesce
description: to luminesce is to emit light through cold body radiation
type: Class
subclass of: to be actively interacted with

data point
subclass of: Restriction
  some values from: entity
  on property: denotes
subclass of: point
description: A data point is a point that which corresponds to the projection of the values of measurement data against the axes of a statistical graph.
type: Class

increased chemical destruction
description: increased chemical destruction is a process in which there is an increase in the amount of chemical destroyed relative to some reference process
type: Class
subclass of: Restriction
  on property: has attribute
  some values from: Class
    intersection of: count
    intersection of: Restriction
      on property: is greater than
      some values from: Class
        intersection of: count
        intersection of: Restriction
subclass of: chemical destruction
subclass of: Restriction
  some values from: increased
  on property: has quality

to be a member of
subclass of: to passively interact with
type: Class
description: to be a member of is the capability to be considered a part of a collection.

software library
description: A software library is software composed of a collection of software modules and/or software methods in a form that can be statically or dynamically linked to some software application.
type: Class
subclass of: software entity

normal
disjoint with: abnormal
equivalent to: PATO:0000461
subclass of: normality
description: A quality that has a value that is normal or average.
type: Class

control variable
subclass of: variable
type: Class
alternative: extraneous variable
alternative: controlled variable
description: A control variable that is believed to alter the dependent or independent variables, but may not actually be the focus of the experiment. So that variable will be kept constant or monitored to try to minimise its effect on the experiment.

clinical trial
description: A clinical trial is an intervention trial to determine the safety and efficacy of medical interventions (e.g., drugs, diagnostics, devices, therapy protocols).
type: Class
subclass of: Restriction
  some values from: experimental protocol
  on property: is specified by
subclass of: intervention study

row
subclass of: Restriction
  on property: has identifier
  some values from: identifier
subclass of: Restriction
  some values from: cell (informational)
  on property: has proper part
subclass of: computational entity
description: A row represents a single, implicitly structured data item in a table.
type: Class

data item
type: Class
subclass of: computational entity
subclass of: Restriction
  some values from: Class
    intersection of: process
    intersection of: Restriction
      some values from: objective
      on property: realizes
  on property: is participant in
description: A data item consists of information that has been collected/generated towards some purpose.

start position
description: A start position is the proximal position of an object relative to an origin in a linear system.
type: Class
subclass of: linear position

is positionally after
inverse of: is positionally before
description: is positionally after is a relation between entities placed on a dimensional axis in which the projection of the position of the first entity is numerically greater than the projection of the position of the second entity.
type: ObjectProperty
type: TransitiveProperty
sub property of: is connected to

to modify
description: to modify is the capability to change some entity.
subclass of: to actively interact with
type: Class

coding frame offset
subclass of: chemical quality
type: Class
description: a coding frame offset is a numeric value that indicates the number of bases from a reference start codon position.

argon atom
type: Class
subclass of: atom

is function of
sub property of: is disposition of
domain: function
type: FunctionalProperty
type: ObjectProperty
description: is function of is a relation between a function and an entity that it is a property of.

dubnium atom
type: Class
subclass of: atom

denotes
inverse of: is denoted by
sub property of: represents
example: the symbol '%' denotes a proportion in relation to a whole.
description: denotes is a relation between an entity and what it is a sign or indication of, or what specifically means.
type: ObjectProperty

protein mediated regulation of translation
subclass of: Restriction
  on property: has agent
  some values from: protein
subclass of: regulation of translation
description: A process mediated by a protein that modulates the frequency, rate or extent of translation.
type: Class

biological data
description: biological data is scientific data relevant to biology.
type: Class
subclass of: dataset

identifier
description: An identifier is a label that specifically refers to (identifies) an entity (instance/type).
subclass of: label
subclass of: Restriction
  on property: is identifier for
  some values from: entity
type: Class

foreign database key
description: A foreign database key is a database key that refers to a key in some table.
type: Class
subclass of: database key
subclass of: Restriction
  some values from: database key
  on property: references

to provide
description: to provide is the capability to make available some object to another that requires it.
subclass of: to retrieve
type: Class

investigation
subclass of: procedure
subclass of: Restriction
  on property: realizes
  some values from: objective
subclass of: Restriction
  on property: has product
  some values from: object
type: Class
alternative: study
description: investigation is the process of carrying out a plan or procedure so as to discover facts or information about the object of study.

caesium atom
type: Class
subclass of: atom

nurse
type: Class
subclass of: Restriction
  on property: has role
  some values from: nurse role
subclass of: medical practitioner
description: A nurse is an individual that is involved in the protection, promotion, and optimization of health and abilities, prevention of illness and injury, alleviation of suffering through the diagnosis and treatment of human response, and advocacy in the care of individuals, families, communities, and populations.

optical isomer
subclass of: stereoisomer
type: Class
description: An optical isomer is a stereoisomer that rotates the plane of polarization of a beam of plane polarized light.

inorganic reaction
subclass of: chemical reaction
type: Class
description: An inorganic reaction is a chemical reaction that involves the transformation of inorganic molecules.

equation
type: Class
subclass of: mathematical entity
description: An equation is a mathematical statement that asserts the equality of two expressions.

weak chemical salt
type: Class
subclass of: chemical salt
description: a weak chemical salt is a chemical salt composed of weak eletrolytes.

genotype
type: Class
description: A genotype is a functional specification of a biological entity in terms of its genetic composition (or lack thereof).
subclass of: functional specification

double bond
description: A double bond is a covalent bond between a pair of atoms in which two pairs of electrons are shared.
subclass of: covalent bond
type: Class

bohrium atom
subclass of: atom
type: Class

titanium atom
type: Class
subclass of: atom

non toxic
description: non toxic is the quality of a substance having no damaging effect to a system.
type: Class
subclass of: toxicity

molecular modification
type: Class
description: Molecular modification is chemical alteration of a known and previously characterized lead compound for the purpose of enhancing its usefulness as a drug. This could mean enhancing its specificity for a particular body target site, increasing its potency, improving its rate and extent of absorption, modifying to advantage its time course in the body, reducing its toxicity, changing its physical or chemical properties (like solubility) to provide desired features.
subclass of: chemical reaction

is unit of
type: ObjectProperty
domain: unit of measurement
description: is unit of is a relation between a unit and a quantity that it is a multiple of.
sub property of: is attribute of

neon atom
type: Class
subclass of: atom

rank nonzero tensor
description: a rank nonzero tensor is a tensor with a rank greater than zero.
subclass of: tensor
subclass of: Restriction
  all values from: Class
    intersection of: tensor
    intersection of: Restriction
      on property: has attribute
      some values from: ordinal position
  on property: has proper part
type: Class

single displacement reaction
type: Class
subclass of: displacement reaction
description: A single displacement reaction where one atom is transferred out of one molecule and into another.

unsupported
subclass of: existence quality
description: unsupported is an existence quality in which there is no evidence to support the existence of the entity in any world (real or hypothetical)
type: Class

to encode information
type: Class
description: the capability to encode information in a different representation
subclass of: to actively interact with

to produce
description: to produce is the capability to create new objects
subclass of: to actively interact with
type: Class

enzyme
type: Class
equivalent class: Class
  intersection of: Class
    union of: protein
    union of: protein complex
  intersection of: Restriction
    some values from: Class
      intersection of: to covalently modify
      intersection of: Restriction
        some values from: chemical reaction
        on property: is realized in
      intersection of: Restriction
        some values from: chemical entity
        on property: in relation to
    on property: has function
subclass of: Class
  union of: protein
  union of: protein complex
subclass of: protein
description: An enzyme is a protein or protein complex that realizes its disposition to covalently modify some molecule during a chemical reaction.

PDB file
subclass of: molecular structure file
type: Class
description: A PDB file is a molecular structure file specified by the Protein DataBank (PDB).

lipid
description: A lipid is a water-insoluable organic molecule.
subclass of: organic molecule
type: Class

right value axis
type: Class
description: A right value axis is a value axis that is spatially positioned to the right of the plot area.
subclass of: value axis

genomic sequence variant
description: a genomic sequence variant is part of a nucleic acid which is compositionally different than another reference genomic part.
type: Class
subclass of: nucleic acid part
alternative: variant

collective
description: A collective is a group of entities that share or are motivated by at least one common issue or interest, or work together on a specific project(s) to achieve a common objective.
type: Class
alternative: group
subclass of: social structure

hemizygous
type: Class
subclass of: zygosity
description: hemizygous is the quality of a biological organism in which, based on the ploidy of the organism, there is half the number of alleles than normal at a given locus.

has proper part
type: AsymmetricProperty
type: ObjectProperty
type: IrreflexiveProperty
inverse of: is proper part of
description: has proper part is an antisymmetric, irreflexive (normally transitive) relation between a whole and a distinct part.
example: a car has an engine as a proper part; a car has a piston as a proper part;
sub property of: has part

complex number
type: Class
subclass of: Class
  intersection of: Restriction
    on property: has component part
    on class: imaginary number
    qualified cardinality: 1
  intersection of: Restriction
    qualified cardinality: 1
    on property: has component part
    on class: real number
subclass of: number
description: a complex number is an element of a number system that extends the real numbers with an imaginary unit i. Every complex number can be expressed in the form a + bi, where a and b are real numbers.

InCHI notation
subclass of: chemical notation
type: Class

centrality measure
type: Class
subclass of: quantity
description: A central tendency measure is a central value or a typical value for a probability distribution.

jealousy
description: jealousy is an emotion and typically refers to the negative thoughts and feelings of insecurity, fear, and anxiety over an anticipated loss of something that the person values, particularly in reference to a human connection.
type: Class
subclass of: envy

hydrogen atom
type: Class
subclass of: atom

age
description: age is the length of time that a person has lived or a thing has existed.
type: Class
subclass of: dimensional quantity

anxiety
description: anxiety is an emotion charactersized by intense feeling of fear and concern coupled with a physical response.
type: Class
subclass of: apprehension

mendelevium atom
type: Class
subclass of: atom

line graph
example: Graph 1 in http://tinyurl.com/opwnvm
description: A line graph is a statistical graph in which lines contains the evaluation of functions or individual points connected by line segments.
type: Class
alternative: line chart
subclass of: statistical graph

chemical notation
description: a notation to describe a chemical entity
subclass of: notation
type: Class

morpheme
type: Class
description: A morpheme is the smallest semantically meaningful unit in a language.
subclass of: language entity

is mutual disposition of
type: SymmetricProperty
type: ObjectProperty
sub property of: is mutually related to
description: a is mutual disposition of b if and only if the realization of the disposition a necessarily causes the realization of the disposition b.

report
description: A report is a textual document made that present focused, salient content to a specific audience.
type: Class
subclass of: document

molecular complex dissociation
description: molecular complex disassociation is the process of dissambly of a molecular complex into its constitutent parts.
subclass of: Restriction
  on property: has target
  some values from: molecular complex
subclass of: chemical destruction
type: Class

increased object consumption from increased regulation
description: increased regulation leads to an increase in the consumption of an object of specified type.
subclass of: regulation of object consumption
type: Class

astatine atom
type: Class
subclass of: atom

to translocate
subclass of: Restriction
  on property: is mutual disposition of
  some values from: to be translocated
subclass of: to interact with
description: to translocate is the capability to displace oneself from one location to another.
disjoint with: to be translocated
type: Class
alternative: to move

density
type: Class
description: Density (volumetric mass density) is the quantity of mass per unit volume of a substance.
subclass of: 3D extent quantity

difference in number of objects produced
subclass of: count
description: A difference in number of objects produced is a count of the number of objects produced with respect to a second variable (space, time, etc)
type: Class

day
subclass of: time interval
type: Class
description: A day is a period of 24 hours.

thulium atom
type: Class
subclass of: atom

to be a part of
description: to be a part of is the capability to be assembled into a larger structure that persists in time.
subclass of: to be combined
type: Class

quote
subclass of: Restriction
  some values from: textual entity
  on property: is derived from
subclass of: excerpt
type: Class
description: A quote is a excerpt that is attributed to a particular source.

catalyst
subclass of: Restriction
  on property: has capability
  some values from: to regulate the rate of formation
subclass of: chemical substance
subclass of: Restriction
  some values from: to reduce the activation energy
  on property: has capability
description: A catalyst is a molecule that has the capability to reduce the activation energy of a reaction and hence increase the overall rate of reaction.
type: Class

probability measure
description: A probability measure is quantity of how likely it is that some event will occur.
type: Class
subclass of: dimensionless quantity

to change appearance
description: to change appearance is the capability to change the visual attributes of an object.
type: Class
subclass of: to modify

revision number
description: A revision number is a version of a software in which bugs have been fixed from a prior version.
type: Class
subclass of: software version label

person
description: A person is an object that has certain capacities or attributes constituting personhood.
subclass of: specialized object
type: Class

seaborgium atom
type: Class
subclass of: atom

quality descriptor
subclass of: informational quality
type: Class

hour
subclass of: time interval
description: An hour is a period of 60 minutes.
type: Class

alpha helix
description: An alpha helix is structural region of a protein that is characterized by 3.6 residues per turn, a translation of 1.5 angstroms along the helical axis in which backbone N-H groups form a hydrogen bond to the backbone carboxyl group of the amino acid four residues prior.
subclass of: amino acid polymer submolecule
type: Class

software script
type: Class
subclass of: software entity
description: A software script is software whose instructions can be executed using a software interpreter.

week
description: A week is a period of 7 consecutive days.
type: Class
subclass of: time interval

3' untranslated region
description: A three prime untranslated region (3'-UTR) is the section of messenger RNA (mRNA) that immediately follows the translation termination codon.
type: Class
subclass of: gene component

terminal point
description: A terminal point is a point that defines the finite extension of a line.
type: Class
subclass of: point

beta strand
subclass of: amino acid polymer submolecule
description: A beta strand is structural region of a protein that is characterized by a roughly planar sequence of amino acid residues forming hydrogen bonds between the N-O and the C=O of another part of the peptide and having their side chains perpendicular to the planar axis.
type: Class

abstract section
description: An abstract section is a document section that provides brief summary of a document that explains the main argument(s), topic(s) or findings.
subclass of: document section
type: Class

has unit
subset: core
inverse of: is unit of
description: has unit is a relation between a quantity and the unit it is a multiple of.
type: FunctionalProperty
type: ObjectProperty
sub property of: has attribute
domain: mathematical entity
range: unit of measurement

healthy
description: healthy is an organismal state of complete physical, mental and social well-being.
type: Class
subclass of: alive

study design
alternative: study protocol
subclass of: experimental protocol
subclass of: Restriction
  all values from: Restriction
    some values from: investigation
    on property: is part of
  on property: is manifested as
type: Class
description: A study design is a protocol for the proper execution of a study which normally requires a carefullly crafted research question or hypothesis and at least one variable under observation and observed values for that variable.

precedes
type: ObjectProperty
type: TransitiveProperty
inverse of: is preceded by
subset: core
sub property of: is causally related from
description: A transitive, temporal relation in which one process precedes (has occured earlier than) another process.

to bind to
subclass of: to associate
type: Class
description: to bind to is the capability to physically interact with another object through a set of non-covalent interactions.

pie chart
subclass of: mereological chart
type: Class
description: A pie chart is a circular chart divided into sectors each of whose length is proportional to the quantity it represents.

satisfaction qualifier
subclass of: informational quality
type: Class

exclusion criterion
description: An exclusion criterion is a criterion that must be absent to satistify the objective.
subclass of: criterion
type: Class

vertical bar graph
subclass of: bar graph
example: Graph 4,5 in http://tinyurl.com/opwnvm
type: Class
description: A vertical bar graph is a bar graph in which the rectangular bars are vertically oriented in space.

actinium atom
type: Class
subclass of: atom

regulation of translation
description: A process that modulates the frequency, rate or extent of translation.
subclass of: regulation of biochemical process
type: Class

real number
type: Class
subclass of: complex number
description: a real number is a complex number whose imaginary part is zero, e.g. a + 0i.

fusion gene-disease association
description: A gene-disease association in which the fusion between two different genes (promotor and/or other coding DNA regions) is associated with the disease.
type: Class
subclass of: gene-disease association linked with genomic alterations

media
description: media are audo/visual/audiovisual modes of communicating information for mass consumption.
subclass of: information content entity
type: Class

has function
description: has function is the relation between an entity and a function that is ascribed to it.
inverse of: is function of
sub property of: has disposition
type: InverseFunctionalProperty
type: ObjectProperty
range: function

gene-disease association linked with germline causal mutation
description: A gene-variant disease association in which a germline mutation in the gene/protein results in the development or maintenance of the disease, and it may be passed on to offspring.
subclass of: gene-disease association linked with causal mutation
type: Class

oxygen atom
type: Class
subclass of: atom

process maintenance
type: Class
description: The process of maintaining some the frequency, rate or extent of another process.
subclass of: regulation of process

partial negative charge
description: A partial positive charge is a partial charge where the value of the charge is positive.
subclass of: partial charge
type: Class

conversing
type: Class
description: conversing a form of interactive, spontaneous communication between two or more agents who are following rules of etiquette.
subclass of: communicating

is immediately transformed from
type: ObjectProperty
sub property of: is transformed from
description: A temporal relation in which an entity mainstains identity from one state to another.

apartment number
subclass of: positional identifier
description: An apartment number is the number assigned to identify an apartment in a building of apartments.
type: Class

is property of
type: ObjectProperty
type: FunctionalProperty
sub property of: is attribute of
description: is property of is a relation betweena quality, capability or role and the entity that it and it alone bears.

point
description: A point is a geometric entity that is located in a zero-dimensional spatial region and whose position is defined by its coordinates in some coordinate system.
type: Class
subclass of: geometric entity

gene-disease association linked with altered gene expression
subclass of: gene-disease biomarker association
type: Class
description: A gene-disease association in which the disease phenotype is associated with an altered expression of the gene.

set item
subclass of: mathematical entity
subclass of: Restriction
  some values from: set
  on property: is member of
type: Class
description: set item is an item in a set.

free radical addition
type: Class
description: A free radical addition is a non-polar addition reaction involving free radicals.
subclass of: non-polar addition reaction

chemical entity
subset: chemical+
description: A chemical entity is a material entity that pertains to chemistry.
equivalent to: CHEBI:23367
example: atom, ion, molecule, chemical substance,
type: Class
subclass of: material entity

gallium atom
type: Class
subclass of: atom

is covalently connected to
description: is covalently connected to is a relation between an atom and another atom.
type: SymmetricProperty
type: ObjectProperty
sub property of: is directly connected to
sub property of: is covalently connected to (transitive)

parental transmission
type: Class
description: parental transmition is the quality of a biological organism in which the (genetic) material is transmitted from a parental unit.
subclass of: biological quality

expected value
subclass of: probability measure
description: An expected value (or e-value) is the weighted average of all possible values that a random variable can take on.
type: Class

image
description: An image is an affine projection of a visual entity to a two dimensional surface.
type: Class
subclass of: figure
alternative: depiction

term variant
description: A term variant is a term that is a variant of another term.
equivalent class: Class
  intersection of: term
  intersection of: Restriction
    on property: is variant of
    some values from: term
subclass of: term
subclass of: Restriction
  on property: is variant of
  some values from: term
type: Class

mathematical entity
subclass of: information content entity
subset: math+
description: A mathematical entity is an information content entity that are components of a mathematical system or can be defined in mathematical terms.
type: Class

communication device
type: Class
subclass of: device
description: A communication device is a device that facilitates the transmission of information through encoded in an audio or digital signal between a sender and a receiver.

organ
type: Class
description: An organ is a collection of tissues joined in structural unit to serve a common function.
subclass of: biological entity

proposition
description: A proposition is a sentence expressing something true or false.
subclass of: Restriction
  on property: is about
  some values from: entity
subclass of: description
subclass of: Restriction
  on property: has quality
  some values from: truth value
type: Class

solid state hard drive
type: Class
description: A solid-state drive (SSD) is a data storage device that uses solid-state memory to store persistent data.
subclass of: hard disk drive

to maintain information
description: the capability to maintain information such that it can be retrieved in the future.
type: Class
subclass of: to actively interact with

chemical-protein association
subclass of: association
type: Class
comment: A chemical-protein association is an association between a chemical and a protein.

inhibitor role
subclass of: regulator role
description: The role of a chemical entity that reduces the rate of reaction.
type: Class

pharmacokinetic pathway
description: a pharmacokinetic pathway is a metabolic pathway which describes the metabolism of a drug molecule.
subclass of: metabolic pathway
type: Class

is variant of
subset: core
description: is variant of: a relationship indicating that two entities are different (by some measure), but either achieve the same objectives in different ways or are permutations of one another (temporal, logical or otherwise)
sub property of: is comparable to
type: ObjectProperty
type: SymmetricProperty
type: TransitiveProperty

trend line
description: A trend line is a line, line segment or ray that is part of a statistical graph which indicates a statistical or visual direction across categorical or value data.
subclass of: statistical graph line
type: Class

matrix chart
subclass of: chart
type: Class
description: A matrix chart summarizes a multidimensional data set in a grid.

sample
subclass of: Class
  union of: Restriction
    some values from: collection
    on property: is member of
  union of: Restriction
    on property: is derived from
    some values from: object
subclass of: heterogeneous substance
type: Class
description: 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.

lead atom
type: Class
subclass of: atom

maintenance of frequency of process
subclass of: regulation of process frequency
type: Class
description: maintenance of frequency of process is a process that regulates the number of occurences of a target process type to a specified number or interval.

length of perimeter
subclass of: 2D extent quantity
description: A perimeter is a length of the outline that surrounds a two-dimensional shape.
type: Class

a collection of duplicates
alternative: duplicates
subclass of: Restriction
  on property: has member
  some values from: duplicate
subclass of: collection
type: Class
description: a collection of duplicates is a collection composed of items that are an exact copy of other items in the collection.

has expression
sub property of: is generically related with
type: ObjectProperty
example: the story 'war of worlds' is expressed as every language edition of the book 'war of the worlds'
inverse of: is expression of

end time
type: Class
subclass of: time instant
description: An end time is a time instant pertaining to the time at which a process ends.

regulatory pathway
subclass of: biochemical pathway
type: Class
description: A regulatory pathway is a series of biochemical reactions that lead to the increase or decrease of activity of participating molecular components.

spatial quantity
type: Class
description: A spatial quantity is a quantity obtained from measuring the spatial extent of an entity
subclass of: dimensional quantity
subclass of: Restriction
  on property: is attribute of
  some values from: object
subclass of: Restriction
  some values from: quantity
  on property: has measurement value
alternative: physical dimensional quantity

neither good nor poor quality
type: Class
subclass of: quality descriptor

supernatant
description: A supernatent is a liquid substance that remains after centrifugation.
subclass of: centrifugation substance
type: Class

multiple sequence alignment
subclass of: sequence alignment
type: Class
description: A multiple sequence alignment is a sequence alignment involving more than two sequences.

author contribution section
subclass of: document section
description: An author contribution section is a document section that describes the contribution of the authors.
type: Class

PDB record identifier
subclass of: record identifier
description: A PDB record identifier is an identifier for a PDB generated record.
type: Class

cellular phone number
subclass of: telephone number
type: Class
description: a cellular phone number is a number to connect to a mobile device

protein-disease association
subclass of: association
type: Class
comment: A protein-disease association is an association between a protein and a disease.

cofactor role
type: Class
description: The role of a chemical entity involved in the mechanism for enzyme-mediated catalysis.
subclass of: molecular entity role

decreased spatial extent of process from decreased regulation
subclass of: regulation of process spatial extent
description: The increase of regulation leads to a decreased spatial extent of the target process.
type: Class

sequence end position
subclass of: end position
subclass of: sequence element position
type: Class
description: A sequence end position is the position of the last character in a sequence of characters relative to some linear frame of reference.

regulation of process duration
subclass of: regulation of process
description: regulation of a process duration is a process that modulates the duration of another process relative to some reference process.
type: Class

sound argument
subclass of: Restriction
  on property: has proper part
  some values from: Class
    intersection of: premise
    intersection of: Restriction
      some values from: true
      on property: has quality
subclass of: valid argument
description: A sound argument is a valid argument with true premises.
type: Class

preferred name
description: A preferred name is the name that is generally used by some organization.
subclass of: name
type: Class

open reading frame
subclass of: Class
  intersection of: Restriction
    on class: start codon
    on property: has component part
    qualified cardinality: 1
  intersection of: Restriction
    on class: stop codon
    on property: has component part
    qualified cardinality: 1
subclass of: gene component
subclass of: Restriction
  on property: is transcribed into
  some values from: Class
    intersection of: RNA transcript
    intersection of: Restriction
      some values from: polypeptide
      on property: is translated into
type: Class
description: An open reading frame (ORF) is a part of a gene that encodes a protein but does not contain a stop codon.

is source of
type: ObjectProperty
sub property of: is attribute of
description: is source of is a relation between a source of information about some entity.
inverse of: has source

copyright section
description: A copyright section is a document section that contains a notice of copyright.
type: Class
subclass of: document section

inhibitor
type: Class
subclass of: molecular regulator
description: A molecular inhibitor is a molecular regulator that realizes its disposition to conformationally change a target molecule and decrease its functionality.

membrane transport
subclass of: chemical transport
type: Class
description: membrane transport is the movement of molecules across a membrane.

maintenance of quantity of object production
description: maintenance of quantity of object production is a regulation of object production in which the number of objects produced is held more or less constant.
type: Class
subclass of: regulation of object production

to actively interact with
type: Class
subclass of: to interact with
description: to actively interact with is the capability to interact with another entity in a way that requires physical contact.

text quality
subclass of: object quality
subclass of: Restriction
  some values from: textual entity
  on property: is quality of
description: text quality is the quality of a textual entity.
type: Class

block histogram
subclass of: histogram
description: A block histogram contains an x-axis that is divided into bins which correspond to value ranges. Each item in the data set is drawn as a rectangular block, and the blocks are piled into the bins to show how many values in each range.
type: Class

y-axis
type: Class
description: A y-axis is a Cartesian coordinate axis that is spatially oriented perpendicular to the x-axis.
alternative: vertical axis
subclass of: Cartesian coordinate axis

directed line segment
description: A directed line segment is a line segment that is contained by an ordered pair of endpoints (a start point and an endpoint).
subclass of: Restriction
  on property: has component part
  qualified cardinality: 1
  on class: endpoint
subclass of: line segment
subclass of: Restriction
  on class: start point
  qualified cardinality: 1
  on property: has component part
type: Class

to breathe
description: to breathe is the capability to inhale and exhale air into the body during respiration.
subclass of: capability
type: Class

structural isomer
description: A structural isomer is an isomer in which the atoms are joined together in different ways.
type: Class
subclass of: isomer

sequence variation notation
subclass of: notation
type: Class

temporal qualifier
description: a temporal qualifier is pertains to the frequency of the event of interest.
type: Class
subclass of: informational quality

to gain a covalent bond
description: to gain a covalent bond is the capability of a chemical entity to have bonds added.
subclass of: to be covalently modified
type: Class

describes
sub property of: refers to
subset: core
type: ObjectProperty
description: describes is a relation between one entity and another entity that it provides a description (detailed account of).

specification
subclass of: Restriction
  on property: specifies
  some values from: entity
subclass of: Restriction
  on property: has expression
  some values from: information content entity
subclass of: Restriction
  some values from: objective
  on property: has component part
subclass of: description
type: Class
description: A specification is a description of the essential technical attributes/requirements for an object or procedure, and may be used to determine that the object / procedure meets its requirements/attributes.

information encoding
subclass of: information translation
type: Class

viroid
description: A viroid is a molecule of RNA that does not code for and is not protected by a protein coat.
subclass of: non-cellular organism
type: Class

protein family
description: a protein family is a collection of proteins that share a common evolutionary origin, reflected by their related function and similarity in composition or structure.
type: Class
subclass of: collection

rna mediated regulation of translation
subclass of: regulation of translation
subclass of: Restriction
  some values from: RNA transcript
  on property: has agent
type: Class
description: A process mediated by rna that modulates the frequency, rate or extent of translation.

ununquadium atom
type: Class
subclass of: atom

first name
subclass of: name
type: Class
description: A first name is a name that denotes a specific individual between members of a group of individuals, whose members usually share the same surname.

gene expression value
description: A gene expression value is a measured value obtained from a gene expression experiment.
type: Class
subclass of: dimensional quantity

minute
subclass of: time interval
description: A minute is a period of 60 seconds.
type: Class

to regulate the rate of formation
description: to regulate the rate of formation is to modify the rate at which an object is formed.
type: Class
subclass of: to regulate

reviewed
description: reviewed is the quality of a textual entity that has been examined and commented on by another party.
subclass of: written
type: Class

personal name
subclass of: name
alternative: full name
description: A personal name is a name to identify an individual person and usually comprises of a first name and a last name.
type: Class

protein domain
subclass of: amino acid polymer submolecule
description: A protein domain is a part of a protein that maintains its structure and function independently of the rest of the protein.
type: Class

brief
subclass of: legal document
type: Class
description: A brief is a written legal document used in various legal adversarial systems that is presented to a court arguing why one party to a particular case should prevail.

is transitively related to
type: ObjectProperty
type: SymmetricProperty
type: TransitiveProperty
subset: ovopub
comment: not implemented in standard distribution

length
description: length is the longer dimensional extent along a 2D projection of the object.
type: Class
subclass of: 1D extent quantity

decreased object production from increased regulation
description: increased regulation leads to a decrease in the number of target objects of a specified type.
type: Class
subclass of: regulation of object production

gene regulatory component
subclass of: gene component
subclass of: Restriction
  some values from: to regulate
  on property: has function
type: Class
description: A gene regulatory component is a gene component that exerts a regulatory function.

orientation
type: Class
subclass of: position
description: orientation is an angle between the bearer and an axis, or the angle between the bearer and another object.

phrase
description: A phrase is a group of words functioning as a single unit in the syntax of a sentence.
subclass of: language entity
subclass of: Restriction
  on property: has direct part
  on class: word
  min qualified cardinality: 2
type: Class

tungsten atom
type: Class
subclass of: atom

ordinary differential equation
subclass of: differential equation
type: Class
description: An ordinary differential equation (ODE) is a differential equation in which the unknown function (also known as the dependent variable) is a function of a single independent variable.

biochemical pathway
subclass of: chemical reaction pathway
description: A biochemical pathway specifies a series of biochemical modifications and transformations towards achieving some biological outcome.
type: Class

locomotion
type: Class
subclass of: active movement
broader than: GO:0040011
description: The self-propelled movement of an object.

control group
subclass of: study group
description: A control group is a group of individuals that are not subject to an intervention of interest, but rather serve as a baseline to compare the outcomes in the intervention group.
type: Class

latitude
type: Class
subclass of: geographic position
description: Latitude is a geographic coordinate which refers to the angle from a point on the Earth's surface to the equatorial plane

predicted gene
description: A predicted gene is a gene that was identified through computational method but has not been experimentally validated.
type: Class
subclass of: gene
subclass of: Restriction
  on property: has attribute
  some values from: predicted

silicon atom
type: Class
subclass of: atom

positively regulates
description: x positively regulates y if and only if x is a process and y is either a process or a quality, and the progression of x exerts an effect that increases the frequency, rate or extent of y
type: ObjectProperty
sub property of: regulates

collection of documents
subclass of: collection
subclass of: Restriction
  min qualified cardinality: 2
  on class: document
  on property: has component part
description: A collection of documents is a non-zero set of documents.
type: Class
equivalent to: http://purl.org/ontology/bibo/Collection

word tree
description: A word tree is a chart that links phrases with contexts through a tree-like branching structure.
type: Class
subclass of: textual chart

to be conformationally changed
description: to be conformationally changed is the capability to be modified in such a way that the object's conformation is changed.
subclass of: to be modified
type: Class

idea
type: Class
description: An idea is a proposition about some object of conceptual thought.
subclass of: proposition

full agreement
description: full agreement is the result of consensus decision making when members of the group unanimously agree.
type: Class
subclass of: agreement

version label
type: Class
description: A version label is a label for a particular form or variation of an earlier or original type.
subclass of: identifier
subclass of: Restriction
  some values from: Restriction
    on property: is variant of
    some values from: entity
  on property: is identifier for

slide
type: Class
subclass of: media
description: A slide is an visual representation meant to communicate some information.

anabolism
subclass of: metabolism
type: Class
description: Anabolism is the set of metabolic processes that construct larger chemical entities units from smaller chemical entities.

destroying
alternative: destruction
subclass of: interacting
subclass of: Restriction
  some values from: object
  on property: has substrate
description: destroying is a process in which something is broken down and/or ceases to exist.
type: Class

list
subclass of: set
subclass of: Restriction
  on property: has member
  some values from: entity
description: A list is any enumeration of a set of items.
type: Class

substrate role
description: The role of a chemical entity that is modified in a chemical reaction.
subclass of: reactant role
type: Class

sorrow
description: sorrow is the emotion that is characterized by a long term state of intense sadness, distress and a degree of resignation (not accepting).
type: Class
subclass of: sadness

indium atom
subclass of: atom
type: Class

affects
type: ObjectProperty
sub property of: has output
inverse of: is affected by

ordinal position
alternative: offset
type: Class
subclass of: linear position
description: A ordinal position is a number that designates the position of an entity from the first entity in an ordered sequence of entities.

to remove a covalent bond
type: Class
description: to remove a covalent bond is the capability to covalently modify a chemical entity by removing a covalent bond.
subclass of: to covalently modify

to disassemble
subclass of: to change materially
description: to disassemble is to physically separate the parts of an object.
type: Class

3D cartesian point
subclass of: point
description: A 3D cartesian point is a point whose position is specified along three dimensions using Cartesian coordinates.
type: Class
equivalent class: Class
  intersection of: point
  intersection of: Restriction
    on class: x cartesian coordinate
    on property: has component part
    qualified cardinality: 1
  intersection of: Restriction
    on class: y cartesian coordinate
    on property: has component part
    qualified cardinality: 1
  intersection of: Restriction
    on property: has component part
    qualified cardinality: 1
    on class: z cartesian coordinate

worm
description: A worm is a non-arthropod invertebrate animal that typically have a long cylindrical tube-like body and no legs.
type: Class
subclass of: multicellular organism

protein expression value
subclass of: dimensional quantity
type: Class
description: A protein expression value is a quantity obtained from a protein expression experiment.

protein
type: Class
equivalent to: CHEBI:36080
subclass of: amino acid polymer
subclass of: Restriction
  on property: has direct part
  some values from: amino acid residue
subclass of: Restriction
  some values from: polypeptide
  on property: has component part
description: A protein is an organic polymer that is composed of one or more linear polymers of amino acids.

issue
subclass of: Restriction
  on property: is proper part of
  some values from: periodical
subclass of: edited publication
description: An issue is a single instance of a periodically published journal, magazine, or newspaper.
type: Class

lust
subclass of: desire
description: lust is the strong desire for sex.
type: Class

plateau line
description: An plateau line is a line segment in which the startpoint and endpoint are ordered along one dimension and the difference of values in a second dimension is zero.
subclass of: trend line
type: Class

list item
subclass of: Restriction
  some values from: entity
  on property: refers to
subclass of: set item
subclass of: Restriction
  some values from: list
  on property: is ordered part of
type: Class
description: a list item is an item in a list.

left value axis
subclass of: value axis
example: The value axis that ranges from 3.0 to 7.4 and corresponds to billions of dollars in Graph 1 of http://tinyurl.com/opwnvm
type: Class
description: A left value axis is a value axis that is spatially positioned to the left of the plot area.

investigational role
description: An investigational role is a role held by participants involved in an investigation.
type: Class
subclass of: processual role

2D cartesian point
subclass of: point
description: A 2D cartesian point is a point whose position is specified along two dimensions using Cartesian coordinates.
type: Class
equivalent class: Class
  intersection of: point
  intersection of: Restriction
    all values from: Class
      union of: x cartesian coordinate
      union of: y cartesian coordinate
    on property: has component part
  intersection of: Restriction
    qualified cardinality: 1
    on class: x cartesian coordinate
    on property: has component part
  intersection of: Restriction
    on property: has component part
    qualified cardinality: 1
    on class: y cartesian coordinate

contempt
subclass of: disgust
type: Class
description: contempt is disgust towards a lower status individual.

moderately quantifier
type: Class
subclass of: quantity modifier

polypeptide
disjoint with: nucleic acid
type: Class
subclass of: Restriction
  min qualified cardinality: 2
  on class: amino acid residue
  on property: has component part
subclass of: amino acid polymer
description: A polypeptide is an organic polymer composed of amino acid residues, typically of less than 50 amino acids in length.

enantiomer
subclass of: stereoisomer
type: Class
description: An enantiomer is a stereoisomer that is a mirror image of its isomer.

increased spatial extent of process from increased regulation
description: The increase of regulation leads to a increased spatial extent of the target process.
type: Class
subclass of: regulation of process spatial extent

reasoning
description: reasoning is the agentive process of using knowledge to evaluate the truth value of a proposition.
subclass of: creating
subclass of: Restriction
  on property: has product
  some values from: Class
    intersection of: truth value
    intersection of: Restriction
      on property: is quality of
      some values from: proposition
type: Class

to heat
subclass of: to supply energy
description: to heat is a capability to increase the internal kinetic energy of a material.
type: Class

rigid
subclass of: structural quality
description: rigid is the quality of maintaining structural integrity (and not bending) under pressure.
type: Class

record identifier
type: Class
subclass of: Restriction
  some values from: database entry
  on property: is identifier for
subclass of: informational entity identifier
description: A record identifier is an identifier for a database entry.

second messenger
description: A second messenger is a molecule that relay signals from receptors on the cell surface to target molecules inside the cell, in the cytoplasm or nucleus.
subclass of: messenger
type: Class

venn diagram
type: Class
description: A Venn diagram is a chart that illustrates all possible logical relations between a finite collection of sets as overlapping circles.
subclass of: chart

aluminium atom
type: Class
subclass of: atom

cation pi interaction
subclass of: ionic interaction
description: A cation pi interaction is an ionic interaction between the localized negative charge of π orbital electrons, located above and below the plane of an aromatic ring, and a positive charge.
type: Class

disordered
description: disordered is a structural quality in which the parts of an object are non-rigid.
subclass of: structural quality
subclass of: Restriction
  some values from: Class
    intersection of: entity
    intersection of: Restriction
      on property: has quality
      some values from: abnormal
  on property: is quality of
type: Class
disjoint with: rigid

SADI semantic web service
subset: sadi
description: a SADI semantic web service is a semantic web service that follows the SADI specification
subclass of: semantic web service
type: Class

host
type: Class
description: A host is an organism that harbors a parasite, or a mutual or commensal symbiont, typically providing nourishment and shelter.
subclass of: organism

undergraduate student advisor role
description: An undergraduate student advisor role is the role of an individual employed at an academic organization that is involved in advising undergraduate students.
type: Class
subclass of: student advisor role

is about
description: is about is a relation between an information content entity and the entity that its primary subject.
type: ObjectProperty
sub property of: describes
inverse of: is subject of

is referred to by
inverse of: refers to
type: ObjectProperty
description: A is referred to by B iff B is an informational entity that makes reference to A.
sub property of: is related to

co-substrate role
description: A co-enzyme role of a chemical entity that is transiently associated, and is regenerated in a separate reaction.
type: Class
subclass of: co-enzyme role

book
type: Class
description: A book is a publication composed of a large number of entries.
subclass of: publication

has realizable property
type: ObjectProperty
type: InverseFunctionalProperty
sub property of: has property

plutonium atom
type: Class
subclass of: atom

ununseptium atom
type: Class
subclass of: atom

uranium atom
type: Class
subclass of: atom

is xenologous to
type: SymmetricProperty
type: ObjectProperty
sub property of: is orthologous to
description: a relation between two entities which indicates their common ancestry but due to horizontal gene transfer.

epimer
description: An epimer is a stereoisomer that differs in configuration at only one stereogenic center.
subclass of: stereoisomer
type: Class

is immediately derived from
type: ObjectProperty
sub property of: is derived from
description: A non-transitive temporal relation in which one entity is immediately derived from a non-identical entity such that there are no intermediate entities between them.

diagnostic opinion
subclass of: opinion
description: A diagnostic opinion is an opinion resulting from a medical diagnostic procedure.
type: Class

bismuth atom
type: Class
subclass of: atom

horizontal line
description: A horizontal line is a line that is positionally oriented with the horizon.
type: Class
subclass of: positionally oriented line

copper atom
type: Class
subclass of: atom

chart
type: Class
subclass of: figure
description: A chart is a figure that displays the relationship among tabular numeric data, functions or some kinds of qualitative structures.

increased molecular production from decreased regulation
description: A process that increases the frequency, rate or extent of process involved in the production of a molecule as a result of decreased regulation.
subclass of: regulation of molecular production
type: Class

to combine
subclass of: to change materially
description: to combine is the capability to modify a set of objects in a way that the object is merged with another object to form a new object or substance.
type: Class

trans-regulatory element
type: Class
description: A trans-regulatory element is a DNA sequence associated with the regulation of a gene located outside the genomic region supporting the corresponding structural DNA region of the trans-regulatory element (i.e., a different DNA strand or different chromosome).
subclass of: nucleic acid part

aspect ratio
subclass of: ratio
description: The aspect ratio of a geometric shape is the ratio of its sizes in different dimensions.
type: Class

is manifestation of
sub property of: is generically related with
type: ObjectProperty

microarray experiment
subclass of: experiment
type: Class
description: A microarray experiment is an experiment that involves a microarray device to measure the expression of one or more genes.

fermium atom
type: Class
subclass of: atom

language entity
subclass of: Restriction
  some values from: Literal
  on property: has value
subclass of: information content entity
subset: nlp+
type: Class
description: A language entity implements some language specification for the visual interpretation and is part of some document.

statement
description: A statement is a proposition that is either (a) a meaningful declarative sentence that is either true or false, or (b) that which a true or false declarative sentence asserts.
type: Class
subclass of: proposition

poison role
description: A poison role is the role of a substance that causes some negative disturbance in an organism.
subclass of: Restriction
  on property: is role of
  some values from: poison
subclass of: toxic role
type: Class

to be covalently modified
type: Class
subclass of: to be modified
description: to be covalently modified is the capability of a chemical entity to have bonds added or removed

to conformationally activate
description: to conformationally activate is to modify the conformation of an entity in such a way that it becomes activated or functional.
subclass of: to modify conformation of
type: Class

excerpt
type: Class
subclass of: textual entity
subclass of: Restriction
  some values from: textual entity
  on property: is part of
description: An excerpt is a contiguous or discontiguous portion of a document.

bioinformatic data
subclass of: biological data
type: Class
description: bioinformatic data is data genereated or used for computer-based investigations of biological phenomena.

chemical synthesis pathway
description: A chemical synthesis pathway is a pathway involved in the assembly of a chemical.
subclass of: chemical reaction pathway
type: Class

iridium atom
type: Class
subclass of: atom

territory
description: A territory is a non-sovereign geographic region.
type: Class
subclass of: geopolitical region

to freeze
type: Class
subclass of: to cool
description: to freeze is the capability to decrease the internal kinetic energy of a material such that it changes state from a gas or liquid to a solid.

altitude
type: Class
description: Altitude is a distance above sea level.
subclass of: position

diffusion equation
description: A diffusion equation describes density fluctuations in a material undergoing diffusion.
type: Class
subclass of: movement equation
subclass of: Restriction
  on property: specifies
  some values from: diffusion

collection ovopub
type: Class
subclass of: ovopub
description: A collection ovopub is an ovopub that contains and links to one or more assertion subgraphs and/or ovopubs, as well as statements describing its provenance. It is used to share a specific set of items or restrict a search to the resources contained therein.
disjoint with: assertion ovopub

minor version number
description: A minor version number is a version of a software that exhibits minor features or significant fix from a prior version.
type: Class
subclass of: software version label

sample quality
type: Class
description: sample quality is the quality of an object that is drawn from a larger population.
subclass of: object relational quality

conjunction (and)
subclass of: logical operator
type: Class
description: AND is a logical operator that has the value true if both of its operands are true, otherwise a value of false.

is measurement value of
type: ObjectProperty
inverse of: has measurement value
description: is measurement value of is a relation between a value and the entity that it is a measurement of.
domain: measurement value
sub property of: is attribute of

t-statistic based increased differential gene expression
subclass of: differential gene expression ratio
subclass of: Restriction
  on property: has attribute
  some values from: Class
    intersection of: t-statistic
    intersection of: Restriction
      on property: has value
      some values from: Datatype
        on datatype: double
description: A t-statistic based increased differential gene expression is a differential gene expression ratio in which the t-statistic is greater than zero.
type: Class

infinite line
subclass of: line
type: Class
description: An infinite line is a line that extends outwards in both directions of a single dimensional and is not bounded by terminal points.

medical diagnosis
subclass of: medical procedure
subclass of: Restriction
  on property: has output
  some values from: diagnostic opinion
subclass of: Restriction
  some values from: Class
    intersection of: biological entity
    intersection of: Restriction
      on property: has quality
      some values from: disordered
  on property: has input
description: A medical diagnosis (often simply termed diagnosis) refers to the process of attempting to determine or identify a possible disease or disorder.
type: Class

book section
type: Class
subclass of: Restriction
  on property: is proper part of
  some values from: book
subclass of: document section
equivalent class: Class
  intersection of: document section
  intersection of: Restriction
    some values from: book
    on property: is proper part of

height
description: height is the one dimensional extent along the vertical projection of a 3D object from a base plane of reference.
type: Class
subclass of: 1D extent quantity

validated gene
subclass of: gene
subclass of: Restriction
  some values from: real
  on property: has attribute
description: An experimentally validated gene is a gene whose existence has been demonstrated through experimental methods.
type: Class

polar solvent
disjoint with: nonpolar solvent
subclass of: Restriction
  some values from: polar
  on property: has quality
subclass of: solvent
description: A polar solvent is a solvent that exhibits a polar quality.
type: Class

molecular structure
type: Class
subclass of: chemical structure
description: molecular structure is the spatial arrangement of atoms in a molecule and the chemical bonds that hold the atoms together.
alternative: molecular geometry

disulfide bond
type: Class
description: A disulfide bond is a bond between two sulfur atoms.
subclass of: single bond

column
description: A column is a vertical sequence of cells in a cellular automata.
subclass of: Restriction
  min qualified cardinality: 0
  on property: has attribute
  on class: name
subclass of: computational entity
subclass of: Restriction
  on property: specifies
  all values from: Class
    intersection of: cell (informational)
    intersection of: Restriction
      on property: has value
      some values from: Literal
    intersection of: Restriction
      all values from: Literal
      on property: has value
type: Class

partial positive charge
disjoint with: partial negative charge
description: A partial negative charge is a negative charge where the value of the charge is negative.
subclass of: partial charge
type: Class

home phone number
description: a home phone number is the number to connect to an phone at a place of residence.
type: Class
subclass of: telephone number

to retrieve
subclass of: to actively interact with
type: Class
description: the capability to retrieve a (digitial/physical/mental) object from a location.

to examine
description: to examine is the capability to make detailed observation.
subclass of: to observe
type: Class

maximal value
type: Class
subclass of: Restriction
  on property: is attribute of
  some values from: collection
subclass of: quantity
description: A maximal value is largest value of an attribute for the entities in the defined set.
alternative: max

ribonucleic acid
disjoint with: deoxyribonucleic acid
subclass of: Restriction
  on property: has component part
  on class: ribonucleotide residue
  min qualified cardinality: 2
subclass of: nucleic acid
type: Class
description: A ribonucleic acid is an organic polymer composed of a sequence of ribonucleotide residues.

active ingredient
description: An active ingredient is a molecular entity that exhibits biological activity.
subclass of: pharmaceutical ingredient
type: Class

increased frequency of process from increased regulation
subclass of: regulation of process frequency
description: The increase of regulation leads to a increased occurence of processes of the target type.
type: Class

disease
type: Class
subclass of: Restriction
  on property: is quality of
  some values from: Class
    intersection of: material entity
    intersection of: Restriction
      on property: has quality
      some values from: abnormal
subclass of: biological quality
description: disease is the outward manifestation of one or more disorders.

sequence
alternative: ordered list
description: A sequence is an ordered list of entities. Like a set, it contains members (also called elements, or terms).
subclass of: Restriction
  some values from: Class
    intersection of: entity
    intersection of: Restriction
      some values from: ordinal position
      on property: has attribute
    intersection of: Restriction
      on property: refers to
      some values from: entity
  on property: has member
subclass of: list
example: For example, (M, A, R, Y) is a sequence of letters that differs from (A, R, M, Y), as the ordering matters, and (1, 1, 2, 3, 5, 8), which contains the number 1 at two different positions, is a valid sequence.
type: Class

genome
subclass of: biological entity
description: A genome is a collection of nucleic acids.
type: Class

specimen
subclass of: sample
description: A specimen is a portion of material for use in testing, examination, or study.
type: Class

is orthologous to
description: is orthologous to is a relation between two biological entities that share a common ancestor and occur in different species.
type: ObjectProperty
type: SymmetricProperty
sub property of: is homologous to

rutherfordium atom
subclass of: atom
type: Class

book series
type: Class
description: A book series is a collection of books that have been sequentially published.
subclass of: collection of documents

invalid argument
subclass of: Restriction
  some values from: Class
    intersection of: conclusion
    intersection of: Restriction
      some values from: false
      on property: has quality
  on property: has proper part
subclass of: argument
type: Class
description: An invalid argument is an argument where the truth of the conclusion is false because it is not a logical consequence of the premises.

small cytoplasmic RNA (scRNA)
description: A small cytoplasmic RNA (scRNA) molecule is a small (7S; 129 nucleotides) RNA molecule found in the cytosol and rough endoplasmic reticulum that are normally associated with proteins that are involved in specific selection and transport of other proteins.
alternative: scRNA
subclass of: Restriction
  on property: is encoded by
  some values from: small cytoplasmic RNA (scRNA) gene
subclass of: non-protein coding RNA (ncRNA)
type: Class

editor reviewed
subclass of: reviewed
description: editor reviewed is the quality of a textual entity that has been examined and commented on by an editor.
type: Class

prognosis
subclass of: proposition
type: Class
description: A prognosis is a proposition about the likely course of a disease, the chance of recovery or recurrence.

journal
equivalent to: http://purl.org/ontology/bibo/Journal
subclass of: periodical
type: Class
description: A journal is a a peer-reviewed periodical in which scholarship relating to a particular academic discipline is published.

gene-disease association linked with genetic variation
type: Class
description: A gene-disease association in which a sequence variation (a mutation, a SNP) is associated with the disease.
alternative: gene variant-disease association
subclass of: gene-disease association linked with genomic alterations

median
type: Class
subclass of: centrality measure
description: A median is the numerical value separating the higher half of a sample, a population, or a probability distribution, from the lower half.

loneliness
subclass of: negative emotion
type: Class
description: Loneliness is an unpleasant emotion in which a person feels a strong sense of emptiness, yearning distress and solitude resulting from inadequate quantity or quality of social relationships.

cancelled
type: Class
subclass of: not started
description: cancelled is a process status in which the process, while planned to occur, will not occur.

normality
equivalent class: Class
  union of: normal
  union of: abnormal
description: normality is the quality in which the value may differ from normal or average
type: Class
subclass of: quality

encodes
description: A relation between two objects, in which the first object contains information that is used to produce the second object.
sub property of: specifies
type: ObjectProperty
example: an open reading frame encodes a protein (it contains information that specifies the amino acid composition and topology)
inverse of: is encoded by

figure
subclass of: media
description: A figure is a graphical entity which consists of a visual (n-dimentional) arrangement of information entities.
type: Class
disjoint with: figure part
alternative: diagram

is agent in
type: ObjectProperty
inverse of: has agent
sub property of: is participant in
description: is agent in is a relation between an entity and a process, where the entity is present throughout the process, no permanent material change occurs, and is a causal participant in the process.
example: hexokinase is an agent in the conversion of glucose to glucose-6-phosphate
subset: sadi

base
description: A base is a molecular entity dissolved in a solvent that is capable of accepting a proton (Bronsted base) or forming a covalent bond with a hydron (Lewis base) .
type: Class
subclass of: liquid solution component

technical report
description: A technical report is a publication published by a school or other institution, usually numbered within a series.
type: Class
subclass of: publication

genetic data
description: genetic data is data pertaining to genetics.
subclass of: biological data
type: Class

nucleic acid
subclass of: Restriction
  min qualified cardinality: 2
  on property: has component part
  on class: nucleotide residue
subclass of: organic polymer
description: A nucleic acid is an organic polymer composed of a sequence of nucleotide residues.
type: Class

radar
description: A radar is an object-detection system which uses radio waves to determine the range, altitude, direction, or speed of objects.
type: Class
subclass of: device

is transcribed from
sub property of: is encoded by
type: ObjectProperty

wonder
description: wonder is an emotion of perceiving something very rare or unexpected, but not threatening.
subclass of: surprise
type: Class

1D extent quantity
subclass of: spatial quantity
description: A quantity that extends in single dimension.
type: Class

gene-disease association linked with susceptibility mutation
subclass of: gene-disease association linked with genetic variation
type: Class
description: A gene-disease association in which a germline mutation in the gene predisposes to the development of the disease, and it is necessary but not sufficient for the manifestation of the disease.

replicate role
description: a replicate role is a comparative role that holds when one item is a reproduction, facsimile, or a copy of another.
type: Class
subclass of: comparative role

none quantifier
type: Class
subclass of: quantity modifier

glassy carbon
type: Class
subclass of: carbon allotrope
description: glassy carbon is an allotrope of carbon which is widely used as an electrode material in electrochemistry, as well as for high temperature crucibles and as a component of some prosthetic devices.

fluorine atom
type: Class
subclass of: atom

to identify
description: to identify is the capability to determine the identity of something.
type: Class
subclass of: to investigate

center of mass
subclass of: position
description: The center of mass (aka barycenter) is the weighted average location of all the mass in a body or group of bodies.
type: Class

test role
description: A test role is the role of an individual that is a participant in the study and is the target of the intervention.
type: Class
subclass of: evaluation role

novel
type: Class
description: A novel is a fictitious prose narrative of book length, typically representing character and action with some degree of realism.
subclass of: publication

love
description: love is an emotion of a strong affection and personal attachment.
subclass of: positive emotion
type: Class

virtual
type: Class
description: virtual is the quality of an entity that exists only in a virtual setting such as a simulation or game environment.
subclass of: existence quality

substrate
type: Class
subclass of: target
description: A substrate is a molecule that is consumed in the course of a biochemical reaction.
equivalent class: Class
  intersection of: molecule
  intersection of: Restriction
    some values from: product
    on property: derives into
  intersection of: Restriction
    on property: is target in
    some values from: chemical reaction

tensor
description: a tensor is a n-dimensional array.
subclass of: mathematical entity
type: Class

status descriptor
type: Class
subclass of: informational quality
description: status descriptor is a descriptor for the state of a process or object.

object quality
subclass of: Restriction
  on property: is quality of
  some values from: object
subclass of: quality
type: Class
description: An object quality is quality of an object.

suspended
description: suspended is the status of a process that is no longer progressing towards completion.
type: Class
subclass of: process status

middle initial
subclass of: middle name
type: Class
description: a middle initial is an abbreviated middle name.

is mutually related to
type: SymmetricProperty
type: ObjectProperty
description: a is mutually related to b if and only if the realization of the relation of a necessarily causes the realization of a relation to b.
sub property of: is related to

complete charge
description: A complete charge is a charge where the value of the charge is a multiple of 1.
equivalent class: Class
  union of: positive charge
  union of: negative charge
subclass of: charged
type: Class

boron atom
type: Class
subclass of: atom

is modelled by
sub property of: is represented by
type: ObjectProperty

software application
description: A software application is software that can be directly executed by some processing unit.
type: Class
subclass of: software entity

americium atom
subclass of: atom
type: Class

epimer association
subclass of: Restriction
  on property: refers to
  on class: epimer
  qualified cardinality: 2
subclass of: association
type: Class

is associated with
type: ObjectProperty
description: x is associated with y when x and y are logically or statistically related to one another.
sub property of: is related to

polyhedral skeleton
subclass of: Restriction
  some values from: polygon edge
  on property: has direct part
subclass of: geometric entity
type: Class
description: A polyhedral skeleton is a collection of polygon edges.

active site
description: An active site is a molecular site in which a chemical event occurs (structural transformation or conformational change).
type: Class
subclass of: molecular site

dentist role
description: A dentist role is the role of an individual that that specializes in the diagnosis, prevention, and treatment of diseases and conditions of the oral cavity.
subclass of: medical role
type: Class

2D extent quantity
subclass of: spatial quantity
description: A quantity that extends in two dimensions.
type: Class

gene-disease association
subclass of: association
subclass of: Restriction
  some values from: gene
  on property: refers to
subclass of: Restriction
  some values from: disease
  on property: refers to
type: Class
description: A gene-disease association is an association between a gene and a disease.

secretary role
type: Class
subclass of: administrative role
description: A secretary role is the role of an individual that performs administrative tasks to support one or more individuals of the same organization.

organization
description: An organization is a collective with a complex articulation of tasks, roles and responsibilities.
type: Class
subclass of: collective

immediately derives into
description: a immediately derives into b if and only if a or some significant part thereof is consumed in the formation of b and there are no identifiable intermediate entities between a and b.
sub property of: derives into
type: ObjectProperty
inverse of: is immediately derived from

to change energetically
description: to change energetically is the capability to change the energetic aspects of an object.
subclass of: to modify
type: Class

is location of
description: A is location of B iff the spatialtemporal region occupied by A has the spatialtemporal region occupied by B as a part. [T][R]
type: ObjectProperty
type: TransitiveProperty
sub property of: is spatiotemporally related to
subset: nlp+

single arrowed line segment
type: Class
subclass of: arrowed line segment
subclass of: Restriction
  qualified cardinality: 1
  on class: triangle
  on property: has component part
description: A single arrowed line is directed line in which the endpoint is tangentially part of a triangle that bisects the line.
disjoint with: double arrowed line segment

legal document
subclass of: document
description: A legal document is a formally executed written document that can be formally attributed to its author, records and formally expresses a legally enforceable act, process, or contractual duty, obligation, or right, and therefore evidences that act, process, or agreement.
type: Class

functional rna coding gene
description: A gene that codes for a functional RNA molecule.
type: Class
subclass of: rna gene

chemical complex
subclass of: chemical substance
subclass of: Restriction
  some values from: Restriction
    on property: is weakly interacting with
    some values from: material entity
  on property: has part
type: Class
description: A chemical complex is a chemical substance composed of weakly connected molecules and ions in a known stoichiometry.

redox reaction
type: Class
subclass of: Class
  intersection of: Restriction
    on property: realizes
    some values from: Class
      intersection of: to oxidize
      intersection of: Restriction
        on property: is disposition of
        some values from: molecule
  intersection of: Restriction
    some values from: Class
      intersection of: to reduce
      intersection of: Restriction
        on property: is disposition of
        some values from: molecule
    on property: realizes
subclass of: chemical reaction
description: A redox reaction is a chemical reaction in which there is a net movement of electrons from one reactant to another.

decreased object consumption from increased regulation
type: Class
subclass of: regulation of object consumption
description: increased regulation leads to an decrease in the consumption of an object of specified type.

medical role
subclass of: occupational role
description: A medical role is the role of an individual that is a participant in the delivery of medical care.
type: Class

primary structure descriptor
description: A primary structure descriptor describes a biomolecular object in terms of a 1D or 2D topology.
subclass of: biomolecular structure descriptor
type: Class

comment
description: A comment is a verbal or written remark often related to an added piece of information, or an observation or statement.
subclass of: proposition
type: Class

potassium atom
subclass of: atom
type: Class

pairwise sequence alignment
type: Class
description: A pairwise sequence alignment is the alignment of exactly 2 sequences.
subclass of: sequence alignment

is surrounded by
sub property of: is contained in
type: ObjectProperty
inverse of: surrounds
description: A 'is surrounded by' B iff the A 'is contained by' B and A 'is adjacent to' B or A 'is directly connected to' B.

disagreement
type: Class
description: agreement is the result of consensus decision making when members of the group do not all agree.
subclass of: agreement quality

yttrium atom
type: Class
subclass of: atom

tellurium atom
type: Class
subclass of: atom

to regulate
alternative: to modulate
type: Class
description: to regulate is to control or maintain the rate or speed of an object or process.
subclass of: to modify

geographic image
description: A geographic image is a photograph of some geographical area.
subclass of: photograph
type: Class

number of objects produced
type: Class
description: number of objects produced is a count of objects that were produced in some process.
subclass of: count

polar quality
description: The quality of being polar or not polar.
type: Class
subclass of: chemical quality
equivalent class: Class
  union of: polar
  union of: non-polar

awe
type: Class
subclass of: positive emotion
description: awe is an emotion produced by that which is grand, sublime or powerful and is characterized by a combination of joy, fear and admiration/reverence/respect.

ionic interaction
description: An ionic interaction is a weak submolecular interaction between a charged submolecules.
subclass of: weak submolecular component
type: Class

false
type: Class
subclass of: Restriction
  has value: false
  on property: has value
subclass of: truth value
description: false is a truth value in that indicates that it is not true.

evaluation role
type: Class
subclass of: investigational role
description: An evaluation role is a processual role held by an entity during some evaluation.

table
type: Class
description: A table is a figure that consists of an ordered arrangement of columns and rows.
subclass of: figure

rhenium atom
type: Class
subclass of: atom

PDB chain identifier
description: A PDB chain identifier is a alphabetical label to identify a molecule in a structure provided by the Protein DataBank .
subclass of: molecular identifier
type: Class

referencing cell
subclass of: cell (informational)
description: A referenceing cell is a cell of a cellular automata that refers to another cell.
type: Class

vocabulary
subclass of: formal specification
subclass of: functional specification
type: Class
description: A vocabulary is a collection of terms.

word start position
subclass of: text span start position
subclass of: Restriction
  some values from: textual entity
  on property: is part of
description: The position of the first character in a word as an offset from the first character of the text in which it is found.
type: Class

circularly helical
description: a circularly helical quality is the quality of a helix that is connected in a circle or loop.
subclass of: helicity
type: Class

observational study
subclass of: Restriction
  on property: specifies
  some values from: Class
    intersection of: truth value
    intersection of: Restriction
      on property: is quality of
      some values from: hypothesis
subclass of: Restriction
  on property: has participant
  some values from: hypothesis
subclass of: experiment
description: observational study draws inferences about the possible effect of a treatment on subjects, where the assignment of subjects into a treated group versus a control group is outside the control of the investigator
type: Class

chemical quality
type: Class
description: chemical quality is the quality of a chemical entity.
subclass of: object quality

chemical descriptor
type: Class
description: A chemical descriptor is a data item that identifies or describes some chemical entity and which conforms to some specification, either for how it is calculated or for how it is measured.
subclass of: scientific data

is mutual capability of
sub property of: is mutually related to
type: SymmetricProperty
type: ObjectProperty
description: a is mutual capability of b if and only if the realization of capability a necessarily causes the realization of capability b.

very poor quality
type: Class
subclass of: quality descriptor

has role
description: has role is a relation between an entity and a role that it bears.
type: ObjectProperty
type: InverseFunctionalProperty
sub property of: has realizable property
range: role

differential gene expression ratio
description: A differential gene expression ratio is the ratio of gene expression values from a test sample compared to a control sample.
subclass of: ratio
type: Class

has ordered part
description: has ordered part of is a proper part relation in which the part is one of a set of linearly ordered parts resulting from the projection of the whole on a linear coordinate system.
sub property of: has proper part
type: ObjectProperty

multicellular organism
subclass of: Restriction
  on property: has proper part
  on class: cell
  min qualified cardinality: 2
subclass of: cellular organism
description: A multi-cellular organism is an organism that consists of more than one cell.
type: Class
disjoint with: unicellular organism

page range
description: A page range denotes the start and end page in some document.
type: Class
subclass of: interval

to lose an electron
description: to lose an electron is the capability of a chemical entity to lose an electron.
subclass of: to be electronically modified
type: Class

argument
type: Class
subclass of: Class
  intersection of: Restriction
    on property: has proper part
    some values from: premise
  intersection of: Restriction
    some values from: conclusion
    on property: has proper part
subclass of: proposition
description: An argument is a set of one or more declarative sentences (or propositions) known as the premises along with another declarative sentence (or proposition) known as the conclusion.

protactinium atom
type: Class
subclass of: atom

major tick mark
description: A major tick mark is a tick mark that indicates the position of a specific numeric value and is adjacent to its value label on the value axis, or is one of a pair of tick marks that delineates the boundary of a categorical value indicated by an adjacent category label on the categorical axis.
subclass of: tick mark
type: Class

spatial region
subclass of: Restriction
  all values from: spatial region
  on property: has part
subclass of: object
example: The airspace above Ottawa airport; the band around the northern hemisphere between 50 degrees N and 60 degrees N; the spatial region occupied by a bottle.
alternative: region
type: Class
description: A spatial region is an object contained in some region of space.

helicity
subclass of: structural quality
description: helicity is the quality of being helical
type: Class

birthing
subclass of: creating
subclass of: Restriction
  on property: has product
  some values from: biological entity
description: birthing is the process by which a biological organism is brought into existence.
type: Class

biosynthesis
subclass of: chemical synthesis
description: biosynthesis is the synthesis of an organic compound in a living organism, usually aided by enzymes.
type: Class

sampling
description: sampling is the act of obtaining a sample, whether through selection, collection or preparation.
subclass of: Class
  intersection of: Restriction
    some values from: sample
    on property: has output
  intersection of: Restriction
    on property: has input
    some values from: object
subclass of: interacting
type: Class

carbon nanofoam
description: carbon nanofoam is an allotrope of carbon that consists of a low-density cluster-assembly of carbon atoms strung together in a loose three-dimensional web. Each cluster is about 6 nanometers wide and consists of about 4000 carbon atoms linked in graphite-like sheets that are given negative curvature by the inclusion of heptagons among the regular hexagonal pattern.
type: Class
subclass of: carbon allotrope

oligopeptide
description: an oligopeptide is an organic polymer composed of fewer than 10 or 15 amino acids.
type: Class
subclass of: amino acid polymer

neptunium atom
type: Class
subclass of: atom

decreased molecular degradation from increased regulation
subclass of: Restriction
  on property: has quality
  some values from: increased
subclass of: regulation of molecular degradation
subclass of: Restriction
  some values from: Class
    intersection of: chemical destruction
    intersection of: Restriction
      on property: has quality
      some values from: decreased
  on property: results in
type: Class
description: A process that decreases the frequency, rate or extent of process involved in the destruction of a molecule as a result of increased regulation.

to compare
subclass of: to examine
description: to compare is the capability to examine in order to note the similarities or differences among a set of objects.
type: Class

grief
type: Class
description: grief is an emotion in response to loss, whether physical or abstract including death, unemployment, ill health or the end of a relationship.
subclass of: sadness

street name
type: Class
subclass of: positional identifier
description: A street name is the token given to identify a particular street.

ontology document
type: Class
description: An ontology document is a document that contains an ontology.
subclass of: document

crystal structure
type: Class
description: A crystal structure is the arrangement of atoms or molecules in a crystalline liquid or solid.
subclass of: molecular structure

department chair role
description: A department chain role is the role of an individual that heads a department at a academic organization.
subclass of: academic role
type: Class

completed
type: Class
subclass of: process status
description: completed is that status of a process that successfully unfolds.

disjunction (or)
subclass of: logical operator
description: OR is a logical operator that results in true whenever one or more of its operands are true.
type: Class

to cleave
type: Class
description: to cleave is to split or sever an object along a natural line or grain.
subclass of: to disassemble

triple bond
subclass of: covalent bond
type: Class
description: A triple bond is a covalent bond between a pair of atoms in which three pairs of electrons are shared.

ratio
description: A ratio is a relationship between two numbers of the same kind expressed arithmetically as a dimensionless quotient of the two which explicitly indicates how many times the first number contains the second.
type: Class
subclass of: dimensionless quantity

category
subclass of: concept
type: Class
description: A category is a class of entities having particular shared characteristics.

ontology
subclass of: formal specification
type: Class
description: an ontology is a formal specification of entities, their attributes and relationships.

rat
subclass of: multicellular organism
description: A rat is a medium-sized, long-tailed rodent of the superfamily Muroidea.
type: Class

workflow
subclass of: algorithm
description: A workflow is an algorithm that is is a depiction of a sequence of operations to achieve one or more objectives.
type: Class

population
type: Class
subclass of: collective
description: A population is all the organisms that both belong to the same group or species and live in the same geographical area.

shyness
subclass of: negative emotion
description: shyness is an emotion of apprehension, lack of comfort, or awkwardness experienced when in proximity to, approaching, or being approached by other individuals, especially in new situations or with unfamiliar individuals.
type: Class

to excite
subclass of: to supply energy
description: to excite is the capability to supply energy to a materila by bombarding it with energetic particles (e.g., photons).
type: Class

month
subclass of: time interval
type: Class
description: A month is a period of time that divides the year.

state
description: A state is a set of governing and supportive institutions that have sovereignty over a definite territory and population.
subclass of: geopolitical region
type: Class

atom
subclass of: chemical entity
description: An atom is composed of a core of protons and/or neutrons which may be surrounded by a cloud of electrons.
type: Class

is annotation of
domain: language entity
type: ObjectProperty
inverse of: has annotation
sub property of: is attribute of
description: is annotation of is a relation between some textual entity and the entity that it annotates.

europium atom
subclass of: atom
type: Class

to be cleaved
description: to be cleaved is the capability to be modified in a way that splits one part of the object from the other.
subclass of: to be modified
type: Class

legal name
subclass of: personal name
description: A legal name is a name given at birth, or which appears on their birth certificate, marriage certificate, or change of name certificate.
type: Class

phenotype
type: Class
subclass of: biological quality
description: A phenotype is an observable characteristic of an individual.

to positively charge
type: Class
description: to positively charge is the capability to remove an electron or add a positively charged ion to a chemical entity.
subclass of: to ionize

inactive ingredient
subclass of: pharmaceutical ingredient
type: Class
description: Aninactive ingredient is a molecular entity that does not exhibit biological activity.

ruthenium atom
type: Class
subclass of: atom

unicellular organism
description: A unicellular organism is a organism that is composed of a single cell.
subclass of: Class
  complement of: Restriction
    on property: is proper part of
    some values from: biological entity
subclass of: cell
subclass of: cellular organism
type: Class

shape
subclass of: object quality
description: shape is the quality of a bearer that relates to its spatial extent.
type: Class

percentage
type: Class
description: A percentage is a number that is a ratio expressed as a fraction of 100. It is denoted using the percent sign "%".
subclass of: ratio

is affected by
sub property of: is participant in
type: ObjectProperty

independent variable
subclass of: variable
type: Class
description: An independent variable is a variable that may take on different values independent of other elements in a system.

institute
subclass of: organization
description: 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.
type: Class

overlaps with
property chain axiom: overlaps with
property chain axiom: is part of
sub property of: is spatiotemporally related to
type: ObjectProperty
type: ReflexiveProperty
type: SymmetricProperty
description: A overlaps with B iff there is some C that is part of both A and B. [S][R]

decimal scale
type: Class
subclass of: Restriction
  some values from: Class
    intersection of: entity
    intersection of: Restriction
      on property: has value
      some values from: decimal
  on property: specifies
subclass of: numeric scale
description: A decimal scale of measurement is one that only specifies decimal values.

maintenance of level of object consumption
description: regulation of a participant quantity is the regulation of a process in which the quantity of a selected participant is maintained at a steady level.
type: Class
subclass of: regulation of object consumption

ethnic group
description: An ethnic group is a group of people whose members identify with each other through a common heritage, consisting of a common culture, including a shared language or dialect.
type: Class
subclass of: human population

unigene cluster
type: Class
subclass of: collection
description: a unigene cluster is a collection of transcripts (ESTs and mRNAs) that map to a particular genomic region.
alternative: cluster of transcripts

REST web service
description: a REST web service is a web service that provides functionality according to the Representational State Transfer (REST) specification.
subclass of: web service
type: Class

strain
type: Class
description: A strain is a genetic variant or kind of microorganism.
subclass of: organism
subclass of: Restriction
  on property: is variant of
  some values from: organism

software interpreter
subclass of: software application
description: A software interpreter is a software application that executes some specified input software.
type: Class

deletion variant role
type: Class
subclass of: sequence variant role
description: A deletion variant role is the role of an sequence that lacks a sub-sequence relative to the frame of reference.

partial differential equation
description: A partial differential equation (PDE) is a differential equation in which the unknown function is a function of multiple independent variables and the equation involves its partial derivatives.
type: Class
subclass of: differential equation

movement equation
type: Class
description: A movement equation describes the displacement of an object in space over time.
subclass of: equation

prosthetic group role
type: Class
description: A coenzyme role of a chemical entity that is covalently bonded to the enzyme.
subclass of: co-enzyme role

syllable
description: A syllable is a verbal entity of language having one vowel sound, with or without surrounding consonants, forming the whole or a part of a word.
type: Class
subclass of: verbal language entity

subcellular entity
type: Class
subclass of: biological entity
subclass of: Restriction
  some values from: cell
  on property: is part of

disease-disease association
subclass of: association
subclass of: Restriction
  on class: disease
  qualified cardinality: 2
  on property: refers to
type: Class
comment: A disease-disease association is an association between two diseases.

paternally transmitted
subclass of: parental transmission
type: Class
description: paternally transmitted is the quality of a biological organism in which the (genetic) material is transmitted from the paternal line.

lanthanum atom
type: Class
subclass of: atom

cis regulatory element
subclass of: nucleic acid part
type: Class
description: A cisregulatory element is a DNA sequence located on the same DNA strand or chromosome as the gene whose expression it affects.

geolegal region
description: A geolegal region is a geographic region which has causal powers confered by a legal entity.
type: Class
example: The 50 kph zones in Ottawa; the geographic region occupied by France.
subclass of: geographic region

recipe
subclass of: action specification
type: Class
description: A recipe is a set of instructions that describe how to prepare or make something.

satisfied qualifier
type: Class
subclass of: satisfaction qualifier

to serve as a template for RNA synthesis
description: to serve as a template for RNA synthesis is the capability of a chemical entity to provide the necessary information or scaffold by which an RNA molecule may be produced.
type: Class
subclass of: to serve as a template for molecular synthesis

catalytic role
description: The role of a chemical participant that serves to increase the rate of reaction by lowering the activiation energy.
subclass of: regulator role
type: Class

inductive argument
type: Class
subclass of: argument
description: An inductive argument is an argument that asserts that the truth of the conclusion is supported by the premises.

to be combined
type: Class
description: to be combined is the capability to be modified in a way that the object is merged with another object to form a new object or substance.
subclass of: to be modified

mass spectrometry experiment
subclass of: experiment
type: Class
description: A mass spectrometry experiment is an experiment that involves the use of a mass spectrometer.

manganese atom
type: Class
subclass of: atom

spherical coordinate system
type: Class
subclass of: coordinate system
description: A spherical coordinate system is a coordinate system for three-dimensional space where the position of a point is specified by three numbers: the radial distance of that point from a fixed origin, its polar angle measured from a fixed zenith direction, and the azimuth angle of its orthogonal projection on a reference plane that passes through the origin and is orthogonal to the zenith, measured from a fixed reference direction on that plane.

hypothesis
subclass of: proposition
description: A hypothesis is a proposed explanation for a phenomenon.
type: Class

is realizable property of
type: FunctionalProperty
type: ObjectProperty
sub property of: is property of
inverse of: has realizable property

liquid solution
subclass of: heterogeneous substance
type: Class
description: A liquid solution is a heterogeneous substance in a liquid state.

to add a covalent bond
description: to add a covalent bond is the capability to covalently modify a chemical entity by adding a covalent bond.
subclass of: to covalently modify
type: Class

processual role
description: A processual role is a role that can only be realized in a process.
type: Class
subclass of: role

is translated from
type: ObjectProperty
sub property of: is encoded by

has input
inverse of: is input in
sub property of: has participant
type: ObjectProperty
description: has input is a relation between a process and an entity, where the entity is present at the beginning of the process.
subset: sadi
subset: core

sequence variant role
type: Class
description: A sequence variant role is a comparative role in which the composition of characters in a sequence differs when compared to another entity of similar type.
subclass of: variant role

polar addition reaction
type: Class
subclass of: addition reaction
description: A polar addition reaction is an addition reaction involving polar residues.

terbium atom
type: Class
subclass of: atom

local minimum stationary point
description: A local minimum stationary point is a point that has a lower value in some axis than adjacent points.
type: Class
subclass of: stationary point

township
subclass of: geopolitical region
type: Class
description: A township is a rural or sub-urban settlement.

curve
subclass of: geometric entity
type: Class
description: A curve is a geometric entity that may be located in n-dimensional spatial region whose extension may be n-dimensional, is composed of at least two fully connected points and does not intersect itself.

palladium atom
subclass of: atom
type: Class

to describe
type: Class
subclass of: to passively interact with
description: to describe is the capabilty to communicate facts about an entity.

aromatic ring
description: An aromatic ring is a ring in which the electrons are delocalized across all atoms in the ring.
type: Class
subclass of: ring

is disputing evidence for
type: ObjectProperty
sub property of: is evidence for

network diagram
type: Class
subclass of: chart
description: A network diagram consists of a set of vertices connected by edges.

page number
description: A page number is the count of a page in a sequence of pages.
subclass of: count
type: Class

right closed interval
description: a right closed interval is an interval in which there is a real number that is larger than all of its elements.
type: Class
subclass of: interval

3' splice site
subclass of: splice site
description: The 3' splice site is the terminal region of an exon that is 3' to the intron that is to be excised.
type: Class

shock
type: Class
description: shock is an emotion of sudden upset or surprise.
subclass of: negative emotion

emotion
subclass of: behaviour
description: An emotion is a process (experience) that arises internally or from an involuntary physiological response to a stimulus.
type: Class
subset: emotion++

to interact and to be interacted with
subclass of: Class
  intersection of: Restriction
    on property: has proper part
    some values from: to interact with
  intersection of: Restriction
    some values from: to be interacted with
    on property: has proper part
subclass of: mutual disposition
type: Class
description: to interact and to be interacted with is a mutual disposition of interacting objects.

aborted
description: aborted is a process status in which a started process will not complete as intended.
type: Class
subclass of: process status

uncharged
description: The quality of not having a charge.
subclass of: charge quality
type: Class

pH
description: pH is a measure of the activity of the (solvated) hydrogen ion.
type: Class
comment: pH is defined as the decimal logarithm of the reciprocal of the hydrogen ion activity, aH+, in a solution.
subclass of: dimensionless quantity

email address
type: Class
subclass of: informational entity identifier
description: an email address is an identifier to send mail to particular electronic mailbox.

thallium atom
type: Class
subclass of: atom

toxicity
description: toxicity is the quality of a chemical substance to cause injury to an organism in a dose dependent manner.
equivalent class: Class
  union of: toxic
  union of: non toxic
type: Class
subclass of: chemical quality

stationary point
type: Class
subclass of: data point
description: A stationary point is a point that is part of a curve in which the derivative at that point is zero, and hence its value is at least a local maximum or minimum.

organic molecule
type: Class
subclass of: Class
  intersection of: Restriction
    on property: has part
    some values from: carbon atom
  intersection of: Restriction
    on property: has part
    some values from: hydrogen atom
subclass of: molecule
description: An organic molecule is a molecule composed of organic atoms (at least carbon, hydrogen, and optionally oxygen, phosphorus, nitrogen, sulfur)

is evidence for
type: ObjectProperty
sub property of: is referenced by

strong
type: Class
description: strong is a qualitative intensity value that is more intense than moderate, but less intense than severe.
subclass of: intensity

secondary active transport
subclass of: active transport
type: Class
description: secondary active transport or co-transport uses electrochemical potential difference created by pumping ions out of the cell to transport molecules across a membrane.

thesis document
type: Class
description: A thesis document is the written research component of a post-secondary institution that contains a statement supported by arguments.
subclass of: publication

organism
type: Class
equivalent class: Class
  union of: cellular organism
  union of: non-cellular organism
subclass of: biological entity
description: A biological organisn is a biological entity that consists of one or more cells and is capable of genomic replication (independently or not).

booklet
subclass of: document
description: A booklet is a document that lacks a named publisher or sponsoring institution.
type: Class

immediately precedes
inverse of: is immediately preceded by
description: A non-transitive temporal relation in which one process immediately precedes another process, such that there is no interval of time between the two processes.
sub property of: precedes
type: ObjectProperty

comparative role
subclass of: abstract role
description: A comparative role is an abstract role which holds by comparing some attribute of another object of reference.
type: Class

database table
subclass of: Restriction
  on property: is proper part of
  some values from: database
subclass of: computational entity
description: A database table is a set of named columns with zero or more rows composed of cells that contain column values and is part of a database.
type: Class

to covalently modify
subclass of: to change materially
description: to covalently modify is to materially change a molecule by adding or removing covalent bonds between atoms.
type: Class

haplotype
subclass of: genomic sequence variant
description: A haplotype is one of a set of genomic sequence variants.
type: Class

double arrowed line segment
subclass of: Restriction
  on class: triangle
  qualified cardinality: 2
  on property: has component part
subclass of: arrowed line segment
type: Class
description: A double arrowed line is an arrowed line in which both terminal points are tangentially part of different triangles that bisect the line.

misery
subclass of: sadness
description: misery is a feeling of great unhappiness, suffering and/or pain.
type: Class

max exclusive: 0.0

min exclusive: 0.0