The ins and outs of eukaryotic viruses: Knowledge base and ontology of a viral infection
| Autor: | Jane Lomax, Edouard de Castro, Chantal Hulo, Andrea H. Auchincloss, Rebecca E. Foulger, Sylvain Poux, Lydie Bougueleret, Ioannis Xenarios, Patrick Masson, Philippe Le Mercier |
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| Jazyk: | angličtina |
| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
ViralZone viruses Cell Membranes lcsh:Medicine Virus Physiological Phenomena Ontology (information science) Virus Replication Membrane Fusion Biochemistry Terminology Zika virus Viral factory Databases Genetic lcsh:Science Data Management Multidisciplinary Gene Ontologies Genomics Nucleic acids Eukaryotic Cells Virus Diseases Viruses Cellular Structures and Organelles UniProt Research Article Computer and Information Sciences DNA transcription Computational biology DNA replication Biology Microbiology 03 medical and health sciences Terminology as Topic Virology Genetics Ontologies Host Cells lcsh:R Biology and Life Sciences Computational Biology Cell Biology DNA Genome Analysis biology.organism_classification Viral Replication 030104 developmental biology Viral replication lcsh:Q Gene expression Viral Transmission and Infection |
| Zdroj: | PLoS ONE, Vol 12, Iss 2, p e0171746 (2017) PLoS ONE |
| ISSN: | 1932-6203 |
| Popis: | Viruses are genetically diverse, infect a wide range of tissues and host cells and follow unique processes for replicating themselves. All these processes were investigated and indexed in ViralZone knowledge base. To facilitate standardizing data, a simple ontology of viral life-cycle terms was developed to provide a common vocabulary for annotating data sets. New terminology was developed to address unique viral replication cycle processes, and existing terminology was modified and adapted. The virus life-cycle is classically described by schematic pictures. Using this ontology, it can be represented by a combination of successive terms: “entry”, “latency”, “transcription”, “replication” and “exit”. Each of these parts is broken down into discrete steps. For example Zika virus “entry” is broken down in successive steps: “Attachment”, “Apoptotic mimicry”, “Viral endocytosis/ macropinocytosis”, “Fusion with host endosomal membrane”, “Viral factory”. To demonstrate the utility of a standard ontology for virus biology, this work was completed by annotating virus data in the ViralZone, UniProtKB and Gene Ontology databases. |
| Databáze: | OpenAIRE |
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