Changes in 🟢 Biopharma Equipment Ontology

Maturity: 🟢 Released

Added

Classes

Construct	Definition
`AdherentCellCultureHoldingCapability`	cell culture holding capability to contain an adherent cell culture during a cell cultivation process
`AdherentCellCultureHoldingFunction`	adherent cell culture holding capability that is a function of a material entity
`AerationCapability`	gas transfer capability to enable introduction of oxygen-containing gas to a material entity or site
`AgitationRateControllingCapability`	control capability to carry out control of agitation rate
`AnalyticalChromatographySystem`	chromatography system designed to be used in chromatography processes with the primary objective of identifying or quantifying chemical or biological substances
`AsepticBarrierCapability`	capability of a material artifact or engineered system to prevent or limit transfer of contaminating material across a physical boundary separating protected material from potential contamination sources
`BioreactorVessel`	container designed to contain material undergoing a cell cultivation process and to incorporate or interface with one or more components that provide mixing, aeration, monitoring, or control as part of a bioreactor
`CellCultureHoldingCapability`	material containment capability to contain material undergoing a cell cultivation process
`CellCultureHoldingFunction`	cell culture holding capability that is a function of a material entity
`Centrifuge`	engineered system designed to separate materials by subjecting them to centrifugal acceleration generated by rotation
`ControlCapability`	capability of a material artifact, agent, or engineered system to carry out control during a planned process
`Cryovial`	vial designed for storage of material at ultra-low temperatures
`CultivationEnvironmentFunction`	cultivation environment capability that is a function of an engineered system
`DissolvedOxygenControllingCapability`	control capability to carry out control of dissolved oxygen concentration within a particular liquid
`ExhaustGasRemovalCapability`	gas transfer capability to enable removal of gas from a material entity or site
`Flask`	container that has a body wider than its neck and is designed to contain material during a material transformation, separation, measurement, or cultivation process
`FlowRateControllingFunction`	flow rate controlling capability that is a function of a material artifact or engineered system
`FluidTransferCapability`	material transfer capability to enable movement of a fluid to or from a material entity or site
`FoamLevelControllingCapability`	control capability to carry out control of foam level
`GasTransferCapability`	fluid transfer capability to enable movement of a gas to or from a material entity or site
`HeatExchangeCapability`	capability of a material artifact or engineered system to enable transfer of thermal energy between material entities
`Incubator`	engineered system designed to maintain controlled environmental conditions within an enclosed chamber for material entities placed within that chamber
`LiquidTransferCapability`	fluid transfer capability to enable movement of a liquid to or from a material entity or site
`MaterialTransferCapability`	capability of an agent, material artifact, or engineered system to enable movement of material distinct from the capability bearer to or from a material entity or site
`MixingCapability`	capability of a material artifact or engineered system to combine or redistribute material contents to produce a more uniform material mixture or maintain its uniformity
`MixingFunction`	mixing capability that is a function of a material artifact or engineered system
`PHControllingCapability`	control capability to carry out control of pH
`Port`	site that serves as an interface through which material, energy, or information may enter or leave
`PreparativeChromatographySystem`	chromatography system designed to be used in chromatography processes that produce fractions for further downstream processing, such as purification, formulation, or additional separations
`PressureControllingCapability`	control capability to carry out control of pressure
`ProductionBioreactor`	bioreactor which has a production bioreactor role
`ProductionBioreactorRole`	equipment role held by a bioreactor when it is used or planned to be used to carry out a biomanufacturing production process
`RockerBag`	container that is a flexible bag designed for rocking or wave-motion mixing, gently agitating its contents to provide mixing and gas transfer that enable controlled cultivation of cells or microorganisms under low-shear conditions
`SeedBioreactor`	bioreactor which has a seed bioreactor role
`SeedBioreactorRole`	equipment role held by a bioreactor that is involved or planned to be involved in carrying out a cell culture expansion process that is part of a seed train
`ShakeFlask`	flask designed for cultivating biological material or conducting chemical reactions that require aeration and mixing under agitated conditions with a shape that minimizes spillage during shaking
`Shaker`	engineered system designed to apply shaking motion to material entities placed on or in it
`SingleUseRole`	role held by a production consumable or piece of equipment that is used or planned to be used for a single defined use before being discarded or removed from further qualified use
`SolidTransferCapability`	material transfer capability to enable movement of a solid to or from a material entity or site
`SpinnerFlask`	flask designed for cultivating cells in suspension that has as part a component with a mixing function to keep the culture uniformly agitated
`SuspensionCellCultureHoldingCapability`	cell culture holding capability to contain a suspension cell culture during a cell cultivation process
`SuspensionCellCultureHoldingFunction`	suspension cell culture holding capability that is a function of a material entity
`TFlask`	flask designed for cultivating adherent cells that has as part a flat growth surface for cell attachment and a narrow neck for adding or removing material while reducing contamination risk
`TemperatureControllingCapability`	control capability to carry out control of temperature
`ThawingFunction`	thawing capability that is a function of a material artifact or engineered system
`VesselHeadspace`	site within the interior of a vessel that is not occupied by the contained bulk material and is bounded by the vessel walls and, when contents are present, by a surface of those contents
`Vial`	container that is small, sealable, and designed for holding, storing, or dispensing small quantities of material

Removed

Classes

Construct	Definition
`AnalyticChromatographicSystem`	chromatography system designed to be used in chromatography processes with the primary objective of identifying or quantifying chemical or biological substances
`PreparativeChromatographicSystem`	chromatography system designed to be used in chromatography processes that produce fractions for further downstream processing, such as purification, formulation, or additional separations

Changed

Classes

`AffinityChromatographyMedium`

IRI: https://spec.industrialontologies.org/ontology/construct/AffinityChromatographyMedium

Annotations

example = “Protein A Resin typically used for IgG capture; Con A Sepharose resin used for Mannosylated and glucosylated glycoproteins; IMAC resins for capturing proteins with a his-tag as their part; Sterptavidin agarose used for capturing biotinilyated proteins or nucleic acids”
explanatoryNote = “In chromatography, functional groups refer broadly to chemical moieties attached to the stationary phase that provide general interaction types with solutes, such as ionic or hydrophobic interactions. Ligands are a specialized subset of functional groups, typically larger and more complex molecules covalently attached to the medium to enable highly selective and specific binding to target molecules through molecular recognition. In affinity chromatography, ligands are used rather than general functional groups to emphasize this specificity, reflecting the medium’s design for selective capture of particular biomolecules.”

example = “Protein A Resin typically used for IgG capture; Con A Sepharose resin used for mannosylated and glucosylated glycoproteins; IMAC resins for capturing proteins with a his-tag as their part; Streptavidin agarose used for capturing biotinylated proteins or nucleic acids”
explanatoryNote = “In chromatography, functional groups refer broadly to chemical moieties attached to the stationary phase that provide general interaction types with entities transported by the mobile phase, such as ionic or hydrophobic interactions. Ligands are a specialized subset of functional groups, typically larger and more complex molecules covalently attached to the medium to enable highly selective and specific binding to target molecules through molecular recognition. In affinity chromatography, ligands are used rather than general functional groups to emphasize this specificity, reflecting the medium’s design for selective capture of particular biomolecules.”

`BioproductionEnvironmentCapability`

IRI: https://spec.industrialontologies.org/ontology/construct/BioproductionEnvironmentCapability

Annotations

example = “Capability to regulate nutrient feed rates for sustained protein expression; capability to continuously remove metabolic waste products while maintaining nutrient supply in perfusion culture to sustain high-density cell cultures with optimal product formation; capability to maintain continuous culture conditions for high product yield;”
firstOrderLogicAxiom = “BioproductionEnvironmentCapability(x) → Capability(x) ∧ ∃z(EngineeredSystem(z) ∧ capabilityOf(x, z))”
naturalLanguageDefinition = “capability that an engineered system has to provide a controlled environment in which biological entities can produce material products or process intermediates”@en-US
semiFormalNaturalLanguageAxiom = “if x is a ‘bioproduction environment capability’ then x is a ‘capability’ that is the ‘capability of’ some ‘engineered system’”

example = “the bioproduction environment capability of a production bioreactor to maintain conditions for monoclonal-antibody production by a CHO cell culture; the bioproduction environment capability of a perfusion bioreactor to maintain conditions for high-density recombinant-protein production”
firstOrderLogicAxiom = “BioproductionEnvironmentCapability(x) → CultivationEnvironmentCapability(x)”
naturalLanguageDefinition = “cultivation environment capability to provide a controlled environment in which biological entities generate, or are expanded as, a material product or process intermediate”@en-US
semiFormalNaturalLanguageAxiom = “if x is a ‘bioproduction environment capability’ then x is a ‘cultivation environment capability’”

Parents

ManufacturingCapability (https://spec.industrialontologies.org/ontology/construct/ManufacturingCapability)

CultivationEnvironmentCapability (https://spec.industrialontologies.org/ontology/construct/CultivationEnvironmentCapability)

Axioms

SubClassOf: constr:ManufacturingCapability
SubClassOf: constr:capabilityOf some constr:EngineeredSystem

SubClassOf: constr:CultivationEnvironmentCapability

`Bioreactor`

IRI: https://spec.industrialontologies.org/ontology/construct/Bioreactor

Annotations

firstOrderLogicDefinition = “Bioreactor(x) ↔ EngineeredSystem(x) ∧ ( ∃c1∃f1 (BioproductionEnvironmentCapability(c1) ∧ hasCapability(x, c1) ∧ CultivationEnvironmentCapability(f1) ∧ hasFunction(x, f1)) ∨ ∃c2∃f2 (CultivationEnvironmentCapability(c2) ∧ hasCapability(x, c2) ∧ BioproductionEnvironmentCapability(f2) ∧ hasFunction(x, f2)) )”
semiFormalNaturalLanguageDefinition = “every instance of ‘bioreactor’ is defined as exactly an instance of ‘engineered system’ that either has capability some ‘bioproduction environment capability’ and has function some ‘cultivation environment capability’, or has capability some ‘cultivation environment capability’ and has function some ‘bioproduction environment capability’”

firstOrderLogicDefinition = “Bioreactor(x) ↔ EngineeredSystem(x) ∧ ∃b(BioreactorVessel(b) ∧ hasMemberPartAtSomeTime(x,b)) ∧ ∃f(CultivationEnvironmentFunction(f) ∧ hasFunction(x,f))”
semiFormalNaturalLanguageDefinition = “every instance of ‘bioreactor’ is defined as exactly an instance of ‘engineered system’ that ‘has member part at some time’ some ‘bioreactor vessel’ and ‘has function’ some ‘cultivation environment function’”

Axioms

EquivalentTo: constr:EngineeredSystem and constr:hasCapability some constr:BioproductionEnvironmentCapability and constr:hasFunction some constr:CultivationEnvironmentCapability
EquivalentTo: constr:EngineeredSystem and constr:hasCapability some constr:CultivationEnvironmentCapability and constr:hasFunction some constr:BioproductionEnvironmentCapability

EquivalentTo: constr:EngineeredSystem and bfo:has_member_part_at_some_time some constr:BioreactorVessel and constr:hasFunction some constr:CultivationEnvironmentFunction

`ChromatographyColumn`

IRI: https://spec.industrialontologies.org/ontology/construct/ChromatographyColumn

Annotations

adaptedFrom = “AFO_/equipment#AFE:0000217 and CHMO:0000997”

adaptedFrom = “http://purl.allotrope.org/ontologies/equipment#AFE_0000217 and http://purl.obolibrary.org/obo/OBI_0000038”

`ChromatographySystem`

IRI: https://spec.industrialontologies.org/ontology/construct/ChromatographySystem

Annotations

firstOrderLogicDefinition = “ChromatographySystem(x) ↔ EngineeredSystem(x) ∧ ∃s(StationaryPhase(s) ∧ hasMemberPartAtSomeTime(x, s)) ∧ ∃c(MeasurementCapability(c) ∧ hasCapability(x, c)) ∧ ∃f(FlowRateControllingCapability(f) ∧ hasFunction(x, f))”
semiFormalNaturalLanguageDefinition = “every instance of ‘chromatography system’ is defined as exactly an instance of ‘engineered system’ that ‘has member part at some time’ some ‘stationary phase’, ‘has capability’ some ‘measurement capability’, and ‘has function’ some ‘flow rate controlling capability’”

firstOrderLogicDefinition = “ChromatographySystem(x) ↔ EngineeredSystem(x) ∧ ∃s(StationaryPhase(s) ∧ hasMemberPartAtSomeTime(x, s)) ∧ ∃c(MeasurementCapability(c) ∧ hasCapability(x, c)) ∧ ∃f(FlowRateControllingFunction(f) ∧ hasFunction(x, f))”
semiFormalNaturalLanguageDefinition = “every instance of ‘chromatography system’ is defined as exactly an instance of ‘engineered system’ that ‘has member part at some time’ some ‘stationary phase’, ‘has capability’ some ‘measurement capability’, and ‘has function’ some ‘flow rate controlling function’”

Disjoint With

Incubator (https://spec.industrialontologies.org/ontology/construct/Incubator)

Axioms

EquivalentTo: constr:EngineeredSystem and bfo:has_member_part_at_some_time some constr:StationaryPhase and constr:hasCapability some constr:MeasurementCapability and constr:hasFunction some constr:FlowRateControllingCapability

EquivalentTo: constr:EngineeredSystem and bfo:has_member_part_at_some_time some constr:StationaryPhase and constr:hasCapability some constr:MeasurementCapability and constr:hasFunction some constr:FlowRateControllingFunction
constr:ChromatographySystem DisjointWith: constr:Incubator

`CultivationEnvironmentCapability`

IRI: https://spec.industrialontologies.org/ontology/construct/CultivationEnvironmentCapability

Annotations

example = “Capability to maintain optimal temperature and CO₂ levels for cell expansion; capability to provide stable nutrient and oxygen levels that support sustained cell viability and proliferation during expansion phases; capability to sustain controlled humidity for tissue culture; capability to regulate gas composition to support microbial growth; capability to maintain aseptic conditions for long-term cell maintenance.”
naturalLanguageDefinition = “capability that an engineered system has to provide a controlled environment suitable for the growth or maintenance of cells, tissues, or microorganisms”@en-US

example = “the cultivation environment capability of a CO₂ incubator to maintain temperature, carbon-dioxide concentration, and humidity for adherent mammalian-cell culture; the cultivation environment capability of a seed bioreactor to maintain temperature, pH, dissolved oxygen, mixing, and nutrient supply during cell expansion;”
naturalLanguageDefinition = “capability of an engineered system to provide a controlled environment suitable for the growth or maintenance of cells, tissues, or microorganisms, or for the production of material products or process intermediates by those entities”@en-US

`DepthFilter`

IRI: https://spec.industrialontologies.org/ontology/construct/DepthFilter

Annotations

naturalLanguageDefinition = “filter that does not have a defined pore size or structure and which is designed to retain particles both on its surface and within its internal matrix”@en-US

naturalLanguageDefinition = “filter that does not rely on a uniform, defined pore size and that is designed to retain particles both on its surface and within its internal matrix”@en-US

`Filter`

IRI: https://spec.industrialontologies.org/ontology/construct/Filter

Annotations

example = “depth filter; membrane filter”

example = “Polyvinylidene Fluoride (PVDF) membrane filter; Hollow-fiber Polyethersulfone (PES) membrane filter; Aramid/Nomex dust collector heat-resistant filter bag; Millistak+® HC Pro Pod Depth Filter”

`FlowRateControllingCapability`

IRI: https://spec.industrialontologies.org/ontology/construct/FlowRateControllingCapability

Annotations

firstOrderLogicAxiom = “FlowRateControllingCapability(x) → Capability(x) ∧ ∀z(capabilityOf(x, z) → (Agent(z) ∨ PieceOfEquipment(z))) ∧ ∀y(hasRealization(x, y) → PlannedProcess(y))”
naturalLanguageDefinition = “capability that an agent or piece of equipment has to regulate the flow rate of a fluid when participating in a particular planned process”@en-US
semiFormalNaturalLanguageAxiom = “if x is a ‘flow rate controlling capability’ then x is a ‘capability’ such that x is the ‘capability of’ only an ‘agent’ or a ‘piece of equipment’ and whenever some y ‘realizes’ x that y must be a ‘planned process’”

firstOrderLogicAxiom = “FlowRateControllingCapability(x) → ControlCapability(x)”
naturalLanguageDefinition = “control capability to carry out control of flow rate”@en-US
semiFormalNaturalLanguageAxiom = “if x is a ‘flow rate controlling capability’ then x is a ‘control capability’”

Parents

Capability (https://spec.industrialontologies.org/ontology/construct/Capability)

ControlCapability (https://spec.industrialontologies.org/ontology/construct/ControlCapability)

Axioms

SubClassOf: bfo:has_realization only constr:PlannedProcess
SubClassOf: constr:Capability
SubClassOf: constr:capabilityOf only (constr:Agent or constr:PieceOfEquipment)

SubClassOf: constr:ControlCapability

`HydrophobicChromatographyMedium`

IRI: https://spec.industrialontologies.org/ontology/construct/HydrophobicChromatographyMedium

Annotations

example = “Butyl Sepharose used for Hidrophobic Interaction Chromatography; C18 Silica resin used for reverse phase chromatography”

example = “Butyl Sepharose used for Hydrophobic Interaction Chromatography; C18 Silica resin used for reversed-phase chromatography”

`MembraneFilter`

IRI: https://spec.industrialontologies.org/ontology/construct/MembraneFilter

Annotations

example = ““Regenerated cellulose;PES; Amicon® Ultra””

example = “Regenerated cellulose membrane filter; PES (Polyethersulfone) membrane filter; Amicon® Ultra Centrifugal Filter, 10 kDa MWCO”

`MixedModeChromatographyMedium`

IRI: https://spec.industrialontologies.org/ontology/construct/MixedModeChromatographyMedium

Annotations

explanatoryNote = “Different modes of interaction can occur between the chromatographic ligand and the target molecule depending on the experimental conditions. These interactions may function cooperatively or independently. For example, in the case of mixed-mode pH-controllable sorbents, the ligand 4-mercaptoethylpyridine (MEP) exhibits condition-dependent binding behavior. At neutral and basic pH, the pyridine ring remains uncharged, enabling the ligand to act as a hydrophobic binding moiety. As the pH decreases, the nitrogen in the pyridine ring becomes protonated, introducing a positive charge and thereby enabling ionic interactions. This transformation renders the resin a mixed-mode medium. The dual functionality of MEP under different pH conditions exemplifies a chromatographic mode known as hydrophobic charge induction chromatography (HCIC), where hydrophobic binding at neutral pH transitions to charge-mediated elution at lower pH.”

explanatoryNote = “Different modes of interaction can occur between the chromatographic ligand and the target molecule depending on the experimental or operating conditions. These interactions may function cooperatively or independently. For example, in the case of mixed-mode pH-controllable sorbents, the ligand 4-mercaptoethylpyridine (MEP) exhibits condition-dependent binding behavior. At neutral and basic pH, the pyridine ring remains uncharged, enabling the ligand to act as a hydrophobic binding moiety. As the pH decreases, the nitrogen in the pyridine ring becomes protonated, introducing a positive charge and thereby enabling ionic interactions. This transformation renders the resin a mixed-mode medium. The dual functionality of MEP under different pH conditions exemplifies a chromatographic mode known as hydrophobic charge induction chromatography (HCIC), where hydrophobic binding at neutral pH transitions to charge-mediated elution at lower pH.”

`MobilePhase`

IRI: https://spec.industrialontologies.org/ontology/construct/MobilePhase

Annotations

example = “Water as mobile phase in reverse-phase chromatography; acetonitrile used as mobile phase in HPLC; phosphate buffer as mobile phase in ion-exchange chromatography; methanol serving as mobile phase in normal-phase chromatography; gradient of water and acetonitrile as mobile phase in gradient elution; sodium chloride solution as mobile phase in size-exclusion chromatography”
adaptedFrom = “AFO_/role#AFRL:0000011 and GE Protein Purification Handbook and https://goldbook.iupac.org/terms/view/M03952 and htps://www.sartorius.com/en/knowledge/resources/chromatography-glossary”

example = “Water as mobile phase in reverse-phase chromatography; acetonitrile used as mobile phase in HPLC; phosphate buffer as mobile phase in ion-exchange chromatography; methanol serving as mobile phase in normal-phase chromatography; a water-acetonitrile mixture serving as the mobile phase during gradient elution; sodium chloride solution as mobile phase in size-exclusion chromatography”
adaptedFrom = “http://purl.allotrope.org/ontologies/role#AFRL_0000011 and GE Protein Purification Handbook and https://goldbook.iupac.org/terms/view/M03952 and https://www.sartorius.com/en/knowledge/resources/chromatography-glossary”

`MobilePhaseRole`

IRI: https://spec.industrialontologies.org/ontology/construct/MobilePhaseRole

Annotations

example = “Water as mobile phase in reverse-phase chromatography; acetonitrile used as mobile phase in HPLC; phosphate buffer as mobile phase in ion-exchange chromatography; methanol serving as mobile phase in normal-phase chromatography; gradient of water and acetonitrile as mobile phase in gradient elution; sodium chloride solution as mobile phase in size-exclusion chromatography”
adaptedFrom = “AFO_/role#AFRL:0000011 and GE Protein Purification Handbook and https://goldbook.iupac.org/terms/view/M03952”
explanatoryNote = “In gas chromatography the expression carrier gas may be used for the mobile phase. In elution process the expression ‘eluent’ ‘is also used for the mobile phase.”

example = “the mobile phase role borne by phosphate buffer during ion-exchange chromatography; the mobile phase role borne by a water-acetonitrile mixture during reversed-phase liquid chromatography; the mobile phase role borne by helium during gas chromatography”
adaptedFrom = “http://purl.allotrope.org/ontologies/role#AFRL_0000011 and GE Protein Purification Handbook and https://goldbook.iupac.org/terms/view/M03952”
explanatoryNote = “In gas chromatography, the expression ‘carrier gas’ may be used for the mobile phase. In an elution process, the expression ‘eluent’ is also used for the mobile phase.”

`ProteinAChromatographyMedium`

IRI: https://spec.industrialontologies.org/ontology/construct/ProteinAChromatographyMedium

Annotations

explanatoryNote = “1) Protein A is a bacterial cell wall protein derived from Staphylococcus aureus that specifically binds to the Fc region of IgG antibodies. This property enables the selective capture of antibodies from complex mixtures. Affinity chromatography using Protein A ligands is widely employed in the biopharmaceutical industry as a primary capture step in monoclonal antibody purification due to its high selectivity and strong binding capacity 2) It should be noted that the dominant use of protein A resin is IgG capture from a mixture. However, to keep this concept “future proof” and given the predominantly structure-based definitions of the resin this has not been included in the definition. Instead a ‘protein binding capability’ has been introduced and added as an axiom. Since currently there is no protein and antibody hierarchy present this capability has not been expanded to IgG specifically. This will be modeled in a future version”
naturalLanguageDefinition = “affinity chromatography medium which has a protein A as a ligand”@en-US
semiFormalNaturalLanguageAxiom = “if x is a ‘protein A chromatography medium’ then x is an ‘affinity chromatography medium’ that has capability some ‘protein binding capability’”

explanatoryNote = “1) Protein A is a bacterial cell wall protein derived from Staphylococcus aureus that specifically binds to the Fc region of IgG antibodies. This property enables the selective capture of antibodies from complex mixtures. Affinity chromatography using Protein A ligands is widely employed in the biopharmaceutical industry as a primary capture step in monoclonal antibody purification due to its high selectivity and strong binding capacity 2) It should be noted that the dominant use of protein A resin is IgG capture from a mixture. However, to keep this concept “future proof” and given the predominantly structure-based definitions of the resin this has not been included in the definition. Instead a ‘protein binding capability’ has been introduced and added as an axiom.”
naturalLanguageDefinition = “affinity chromatography medium which has protein A as an immobilized ligand”@en-US
semiFormalNaturalLanguageAxiom = “if x is a ‘protein A chromatography medium’ then x is an ‘affinity chromatography medium’ that ‘has capability’ some ‘protein binding capability’”

`ProteinBindingCapability`

IRI: https://spec.industrialontologies.org/ontology/construct/ProteinBindingCapability

Annotations

example = “Protein A resin capability to bind IgG molecules; Immobilized capture antibody on an ELISA plate capability to bind specific (target) protein; . FcRn Receptor capability to bind therapeutic IgG”
counterExample = “non-specific binding of proteins to surfaces of plastic containers; covalent imobilization of Protein A on agarose resin; non-specific aggregation of proteins; gel filtration resins - while used for protein purification the interaction mechanism is not binding”

example = “the protein binding capability of Protein A resin to bind IgG molecules; the protein binding capability of an immobilized capture antibody on an ELISA plate to bind its target protein; the protein binding capability of an FcRn-bearing surface to bind IgG”
counterExample = “non-specific binding of proteins to surfaces of plastic containers; covalent immobilization of Protein A on agarose resin; non-specific aggregation of proteins; gel filtration resins - while used for protein purification the interaction mechanism is not binding”

`SizeExclusionChromatographyMedium`

IRI: https://spec.industrialontologies.org/ontology/construct/SizeExclusionChromatographyMedium

Annotations

naturalLanguageDefinition = “chromatography medium designed to selectively and reversibly retain molecules based on differences in their size, shape, or molecular weight”@en-US

naturalLanguageDefinition = “chromatography medium designed to selectively and reversibly retain molecules based on differences in their size, shape, or molecular mass”@en-US

`StationaryPhaseRole`

IRI: https://spec.industrialontologies.org/ontology/construct/StationaryPhaseRole

Annotations

example = “Silica gel as stationary phase in normal-phase chromatography; C18 bonded silica as stationary phase in reverse-phase chromatography; agarose bead gel as stationary phase in size-exclusion chromatography; ion-exchange resin as stationary phase in ion-exchange chromatography; protein A immobilized on resin as stationary phase in affinity chromatography; polymeric resin as stationary phase in hydrophobic interaction chromatography.”
explanatoryNote = “AFO_/role#AFRL:0000032 and https://goldbook.iupac.org/terms/view/S05949 and “https://userpages.umbc.edu/~dfrey1/documents/lc_glossary.pd”

example = “the stationary phase role borne by Protein A resin during affinity chromatography; the stationary phase role borne by C18-bonded silica during reversed-phase chromatography; the stationary phase role borne by agarose gel during size-exclusion chromatography”
adaptedFrom = “http://purl.allotrope.org/ontologies/role#AFRL_0000032 and https://goldbook.iupac.org/terms/view/S05949 and https://userpages.umbc.edu/~dfrey1/documents/lc_glossary.pdf”

`ThawingCapability`

IRI: https://spec.industrialontologies.org/ontology/construct/ThawingCapability

Annotations

example = “Capability to uniformly raise temperature of cryopreserved cells in a sterile water bath; capability to provide precise temperature control for thawing frozen culture media in a dry thawing system; capability to deliver controlled microwave heating for rapid thawing of biological samples; capability to maintain setpoint temperature in a recirculating warm water thawing system; capability to apply gentle ultrasonic energy for thawing frozen tissues without damaging structure; capability to regulate heated plate temperature for thawing cryovials in automated thawing devices”
naturalLanguageDefinition = “capability that a engineered system or material artifact has to provide controlled heating to raise the temperature of a material to a specified setpoint, typically to transition the material from a solid or frozen state to a soft or liquid state”@en-US

example = “Capability to uniformly raise temperature of cryopreserved cells in a sterile water bath; capability to provide precise temperature control for thawing frozen culture media in a dry thawing system; capability to deliver controlled microwave heating for rapid thawing of biological samples; capability of a recirculating warm water thawing system able to maintain its setpoint temperature; capability to apply gentle ultrasonic energy for thawing frozen tissues without damaging structure; capability of an automated thawing device for thawing cryovials by regulating its heated plate temperature; capability of a hot-air thawing tunnel that circulates hot air with precisely controlled temperature and flow rate to safely pre-thaw deep-frozen food products”
naturalLanguageDefinition = “capability that an engineered system or material artifact has to provide controlled heating to raise the temperature of a material to a specified setpoint, typically to transition the material from a solid or frozen state to a soft or liquid state”@en-US

`ThawingSystem`

IRI: https://spec.industrialontologies.org/ontology/construct/ThawingSystem

Annotations

firstOrderLogicDefinition = “ThawingSystem(x) ↔ EngineeredSystem(x) ∧ ∃f(ThawingCapability(f) ∧ hasFunction(x, f))”
semiFormalNaturalLanguageDefinition = “every instance of ‘thawing system’ is defined as exactly an instance of ‘engineered system’ that ‘has function’ some ‘thawing capability’”

firstOrderLogicDefinition = “ThawingSystem(x) ↔ EngineeredSystem(x) ∧ ∃f(ThawingFunction(f) ∧ hasFunction(x, f))”
semiFormalNaturalLanguageDefinition = “every instance of ‘thawing system’ is defined as exactly an instance of ‘engineered system’ that ‘has function’ some ‘thawing function’”

Axioms

EquivalentTo: constr:EngineeredSystem and constr:hasFunction some constr:ThawingCapability

EquivalentTo: constr:EngineeredSystem and constr:hasFunction some constr:ThawingFunction