Id: | TSE-Ontology |
Version: | 1.0 |
Description: | This is the ontology of Transmissible Spongiform Encephalopathies (TSEs) and the associated risks of transmission. In particular, this ontology focuses on source material, processing, and end-product use. This is a draft ontology and may change at any time. |
Contact: | Jeff Heflin (heflin@cs.umd.edu) |
Revision Date: | 03 Feb 2000 |
This ontology is declared in this document both in human-readable form (what you see in front of you now) and machine-readable SHOE form (which you can see from viewing the html source of this document). The rest of this document is divided into the following sections:
Substance Liquid Body_Fluid (see Body_Fluid heading for details) Solid Tissue (see Tissue heading for details) End_Product
hasForm(Material, .STRING) materialWeight(Material, .NUMBER, Weight_Unit) volume(Material, .NUMBER, Volume_Unit) tissueSource(Tissue, Animal)
Mammal Primate Human Ungulate Ruminant Bovine Ovine Caprine Porcine Equine Carnivore Rodent Mouse ----------------- Diseased_Animal
age(Animal, .NUMBER) weight(Animal, .NUMBER) geneticBackground(Animal, .STRING) methodOfDeath(Animal, .STRING) originatesFrom(Animal, Location) hasDisease(Diseased_Animal, Disease_Agent) exposureMethod(Diseased_Animal, Exposure_Route) composedOf(Animal, Tissue, .NUMBER(Percentage Weight) prpHomology(Animal(Source), Animal(Target)) prpSequence(Animal, .STRING) commonName(Animal, .STRING) zoologicalName(Animal, .STRING)
Blood Serum Cerebrospinal_Fluid Urine Secretion Bile Colostrum Milk Nasal_Mucosa Saliva Feces
to be determined
Circulatory_Tissue Heart Embryonic_Tissue Fetal_Tissue Placenta Endocrine_Tissue Adrenal_Gland Pituitary Thymus Thyroid_Gland Exocrine_Gland Mammary_Gland Salivary_Gland GI_Tissue Intestine Distal_Colon Ileum Proximal_Colon Liver Pancreas Immune_System_Tissue Bone_Marrow Lymph_Nodes Spleen Tonsil Musculoskeletal_Tissue Connective_Tissue Adipose_Tissue Cartilage Bone Skull Vertebral_Column Skeletal_Muscle Neurologic_Tissue Brain Dura_Mater Dorsal_Root_Ganglia Peripherhal_Nerve Sciatic_Nerve Spinal_Cord Trigeminal_Ganglia Reproductive_Tissue Ovary Testis Seminal_Testis Uterus Respiratory_Tissue Lung Sensory_Tissue Eyes Skin Hair Urinary_Tissue Kidney
none
BSE_Free_Zone BSE_Not_Indigenous_Zone BSE_Low_Incidence_Zone BSE_High_Incidence_Zone
contains(Location, Location) hasClimate(Location, .STRING) hasLegalSystem(Location, .STRING) hasGNP(Location, .NUMBER) hasEconomy(Location, .STRING) hasSurveillanceBy(Location, Organization) surveillanceLevel(Location, .NUMBER) mbmFeedBan(Location, .TRUTH)
TSE CJD Genetic_CJD Spontaneous_CJD Iatrogenic_CJD GSS FFI Kuru BSE FSE NV-CJD Scrapie TME CWD
transmissibility(Disease_Agent, Animal) lethalDose(Disease_Agent, Animal, Tissue, .NUMBER) latency(Disease_Agent, .NUMBER) timeToDeath(Disease_Agent, .NUMBER) mayOriginateFrom(Disease_Agent, Disease_Agent, .NUMBER(Qualitative Scale)) documentedCases(Disease_Agent, Location, .NUMBER) transmissionMethod(Disease_Agent, Exposure_Route) mouse_LD_Titer(Disease_Agent, Animal, Tissue, .NUMBER) discoveryDate(Disease_Agent, .DATE) hasSymptom(Disease_Agent, .STRING) strain(Disease_Agent, .STRING) heritability(Disease_Agent, .TRUTH) hasSpeciesBarrier(Disease_Agent, .TRUTH) onsetAge(Disease_Agent, .NUMBER) incidenceRate(Disease_Agent, .NUMBER) qualtitativeInfectivity(Disease_Agent, Tissue, .STRING) infectivityDensity(Disease_Agent, Tissue, .NUMBER)
Basic_Process Separation Filtration Partitioning Absorption Extraction Precipitation Dilution Concentration Chemical_Treatment Thermal_Treatment Pressure_Treatment Storage Applied_Process Health_Care_Process Phlebotomy Surgery Autopsy Dural_Implantation Neurosurgery Household_Goods_Manufacture Cosmetics_Manufacture Soap_Manufacture Industrial_Process Chemical_Industry_Process Drug_Industry_Process Capsule_Making Food_Industry_Process Slaughter Stunning Exsanguination Skinning Splitting Butchering Rendering Grinding Cooking Pressing Drying Milling Centrifugation Polishing Rendered_Storage Feed_Manufacture
duration(Process, .NUMBER, Time_Unit) hydrolysis(Process, .NUMBER) denaturation(Process, .NUMBER) hasInput(Process, Material) hasOutput(Process, Material) hasStep(Process, Process) precedes(Process, Process) follows(Process, Process) inactivatesAgent(Process, Disease_Agent, .TRUTH) inactivationDegree(Process, Disease_Agent, .NUMBER) concentration(Chemical_Treatment, .NUMBER) pH(Chemical_Treatment, .NUMBER) temperature(Thermal_Treatment, .NUMBER) humidity(Thermal_Treatment, .NUMBER) heatCapacity(Thermal_Treatment, .NUMBER) lipidFraction(Thermal_Treatment, .NUMBER) deltaPascal(Pressure_Treatment, .NUMBER) particleSize(Process, .NUMBER, Length_Unit)
name from base.name
Animal_Feed Human Food Processed_Meat Food_Gelatin Dietary_Supplement Drug Drug_Capsule Biologic Blood_Product Allograft Dura_Mater_Allograft Medical_Device Household_Product Cosmetic Baby_Product Bath_Preparation Eye_Makeup_Preparation Fragance_Preparation Hair_Preparation Hair_Coloring_Preparation Makeup_Preparation Manicuring_Preparation Oral_Hygiene_Product Personal_Cleanliness_Product Shaving_Preparation Skin_Care_Preparation Suntan_Preparation Detergent Soap Industrial_Product Agricultural_Product
hasForm(Material, .STRING) materialWeight(Material, .NUMBER, Weight_Unit) volume(Material, .NUMBER, Volume_Unit) usedVia(End_Product, Exposure_Route) madeFrom(Material, Material) consumedBy(End_Product, Animal) averageConsumption(End_Product, .NUMBER)
Oral_Exposure Topical_Exposure Occular_Exposure (a.k.a. opthalmic) Parenteral_Exposure Implant_Exposure Injection_Exposure Transplant_Exposure Inhalation_Exposure Genetic_Exposure Spontaneous_Exposure
none
None
riskDisease(Risk, Disease_Agent) riskMethod(Risk, Exposure_Route) riskMaterial(Risk, Material) riskSubject(Risk, Animal) riskReductionStep(Risk, Process, .STRING(Helpful?)) qualitativeRisk(Risk, .STRING) quantitativeRisk(Risk, .NUMBER) riskFactors(Risk, .STRING) riskFactorExceptions(Risk, .STRING)
Disease_Incident
eventDate(Event, .DATE) eventLocation(Event, Location) contaminationSource(Disease_Incident, base.SHOEEntity) contaminationMode(Disease_Incident, base.SHOEEntity) numberContaminated(Disease_Incident, .NUMBER) incidenceDisease(Disease_Incident, Disease_Agent) contaminatedSpecies(Disease_Incident, Animal)
Government Commitee
establishes(Organization, Organization) hasSurveillanceOf(Organization, Disease_Agent) governs(Government, Location)
none
memberOf(Person, Organization)
Abstract Comment Dictionary Editorial Guideline Journal Journal_Article Lecture Regulation Review Technical_Report others to be determined
publicationAuthor(Publication, Person) publicationOrg(Publication, Organization) publicationDate(Publication, .DATE) publicationTitle(Publication, .STRING) publishedIn(Publication, Publication) publicationVolume(Journal, .NUMBER) publisher(Publication, Organization) topic(Publication, .SHOEEntity)
Diagnosis Epidemiology Pathogenesis Prevention Sourcing Inactivation Risk Assessment Transmission Treatment
to be determined
Length_Unit Time_Unit Volume_Unit Weight_Unit
(Length_Unit) MM CM M KM (Time_Unit) SEC MIN HOUR DAY MONTH YEAR (Volume_Unit) MM^3 CM^3 M^3 (Weight_Unit) GRAM KG
none
This section contains an incomplete list of definitions for elements of this ontology