Pure Science

Solar System SKOS Ontology Model

"This is an ontological knowledge organization system of the planets, dwarf planets, natural satellites, and small solar system bodies in the Solar System using the SKOS, Simple Knowledge Organization System, schema extended. The model defines resources in English, Spanish, Russian, and simplified Chinese. Each resource entry also contains definitions. This facilitates the generation of mono- or multi-lingual glossaries. The concept terms can be used to feed vocabularies to search applications.

PANTHER Classification System

"The PANTHER (Protein ANalysis THrough Evolutionary Relationships) Classification System was designed to classify proteins (and their genes) in order to facilitate high-throughput analysis. Proteins have been classified according to: Family and subfamily: families are groups of evolutionarily related proteins; subfamilies are related proteins that also have the same function. Molecular function: the function of the protein by itself or with directly interacting proteins at a biochemical level, e.g. a protein kinase.

Enzyme Nomenclature

"By the late 1950's it had become evident that the nomenclature of enzymology, in the absence of any guiding authority, in a period when the number of known enzymes was increasing rapidly, was getting out of hand. The naming of enzymes by individual workers had proved far from satisfactory in practice. In many cases the same enzymes became known by several different names, while conversely the same name was sometimes given to different enzymes.

"By the late 1950's it had become evident that the nomenclature of enzymology, in the absence of any guiding authority, in a period when the number of known enzymes was increasing rapidly, was getting out of hand. The naming of enzymes by individual workers had proved far from satisfactory in practice. In many cases the same enzymes became known by several different names, while conversely the same name was sometimes given to different enzymes.

Multiple Alignment Ontology

"The goal of the MAO project is to develop a controlled, structured vocabulary, that will provide a common language not only for the construction of multiple alignments, but also for the numerous applications that exploit the information available in an integrated, global multiple alignment of a protein family. An important issue in the development of MAO is the interoperability with existing information sources, in order to maximise its’ applicability and utility.

Xenopus Anatomical Ontology

"The Xenopus Anatomical Ontology describes Xenopus anatomy and development as a controlled vocabulary of terms, organized in a graphical structure. Tissues are shown as being part of other tissues and the timing of their development is indicated by start and end stages. The lineage of tissues is represented by develops from relationships between different tissues at different developmental stages. Many items have been classified according to the Common Anatomy Reference Ontology. The ontology is listed at the Open Biomedical Ontologies (OBO Foundry)."

Fission Yeast Phenotype Ontology

" The Fission Yeast Phenotype Ontology (FYPO) is a formal ontology of phenotypes observed in fission yeast. FYPO is being developed to support the comprehensive and detailed representation of phenotypes in PomBase, the online fission yeast resource. Its scope is similar to that of the Ascomycete Phenotype Ontology (APO), but FYPO includes more detailed pre-composed terms as well as computable definitions."

Glycomics Ontology

"The Glycomics Ontology (GlycO) focuses on the glycoproteomics domain to model the structure and functions of glycans and glycoconjugates, the enzymes involved in their biosynthesis and modification, and the metabolic pathways in which they participate. GlycO is intended to provide both a schema and a sufficiently large knowledge base, which will allow classification of concepts commonly encountered in the field of glycobiology in order to facilitate automated reasoning and information analysis in this domain.

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