The Animal Names Terminology Subset of SNOMED CT® Suzanne L. Santamaria, DVM, MS Candidate Veterinary Terminology Services Lab Va-Md Regional College of Veterinary Medicine Identification Integration Importance increases Identification of animals is vital • Animal name foundation of medical record • Mixture of Linnaean and common: – Linnaean terminology for scientific names • Class Aves, Bos taurus – Common animal names used by caretakers • Bird, cattle, psittacine bird • Ambiguity in animal names remains – Cattle = Bos taurus? Cattle = Beefalo? Cow? – Cattle = any animal of subfamily Bovinae that is commonly domesticated, varies by country of origin and regulatory authority staring over the fence. Identification of animals is vital • • • • Electronic recording & transmission increasing Free text entries problematic Incompatible standard lists problematic Need common terminology – between systems and users – integrates both Linnaean and common name – SNOMED-CT determined suitable Extending SNOMED for veterinary use • Veterinary content in SNOMED core is NOT sufficient for clinical or regulatory use • SNOMED core updates slowly (q. 6 mo) • Veterinary content is low priority • Our Solution? – Extension • Our lab maintains a veterinary extension • Currently used by USDA, AAHA, & AAEP Implementation in veterinary medicine: Subset mechanism • • • • • ALL of SNOMED too large for any given use Different groups prefer different phrases Our Solution? – Subset Update subset as often as desired Our lab maintains numerous subsets – USDA: Breeds, species, specimens, lab tests, etc. – AAHA, AAEP: Diagnostic terms Animal names terminology is a starting point • Cattle, sheep, goats, pigs, dogs, cats, horses, birds, aquatic animals, zoo animals, wildlife • Classified by Linnaean ranking, common name, production use, sex, etc. • Integrates with SNOMED core • Advantages of SNOMED • Subsets allow tailoring for groups • Concepts will be added and removed as needs change Example: Laying chicken Concept Formal definitions Polyhierarchy Descriptions Text definition: Female chicken which produces egg for human food consumption Descriptions enhance utility Description Description Type Chicken laying egg for human food Preferred (in SNOMED) description is displayed in SNOMED’s core and VTSL extension browsers. Additional descriptions may be marked preferred for other uses (e.g., computer display at clinic) Laying chicken Each concept has a set of relationships that “define” it • ‘Is A’ relationships form a polyhierarchy – Laying chicken • is a subtype of Gallus gallus AND • is a subtype of Food animal • Other relationships give details – Laying chicken • quality of female AND • role of producing eggs for human food Animal hierarchy adaptable SNOMED core/extension relationship Optional subset relationship Example: Animal and hierarchy below Example: Dairy bull Subset Preferred Description Formal definitions SNOMED Preferred Description Example of text definitions Dairy bull Adult male cattle which produce offspring that will be raised to produce milk Dairy calf Young dairy cattle which are physically immature, typically from birth to weaning Dry cow Adult female cattle that has produced milk at some point but is not currently producing milk Replacement dairy calf Young dairy cattle that will enter milk production at maturity Mature female dairy cattle Adult female dairy cattle that has produced milk at some point but is not currently producing milk Dairy cow Dry dairy cow SNOMED adopted by many organizations Animal names terminology used by some organizations Demo • VTSL SNOMED browser of animal names subset at http://vtsl.vetmed.vt.edu/ Questions? Medical concept in SNOMED: Pneumonia due to Streptococcus SNOMED’s power is in its data structure • • • • • • • • Concept Synonym handling (descriptions) Polyhierarchy Relational/defining mechanism Text definitions, translations History mechanism Extension Subsets SNOMED is a concept based terminology • Concept = an idea which conveys a single, unambiguous, reproducible meaning. • Concepts must have a definable meaning (non-vagueness) • Concepts cannot have more than one meaning (non-ambiguity) • Meanings correspond to no more than one concept (non-redundancy) SNOMED contains unique and permanent concept identifiers •Meaningless numeric identifier •Guaranteed unique within SNOMED and never reused Concept identifier Fully Specified Name Concept Status 27161000009106 Chicken laying egg for human food (organism) 0 •Once created, the meaning of a concept does not change •Concepts can be retired but are never deleted/removed! These things maintain the integrity of YOUR information Introducing Animal Names subset • Animal names: Linnaean and common • SNOMED’s structure facilitates information organization • SNOMED adopted by others • Animal names subset specialized for CVM • Starting point for an animal names terminology for CVM Features of Animal Names subset • FDA CVM chooses: – – – – preferred names/phrases what’s allowed how terms are defined what to distribute • Subset grows gracefully over time • Subset will align with other ontologies used in biomedical and clinical research • Subset can be divided: – Approved animal in SPL – MUMS “species” – Adverse event reporting