The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability

摘要: The Cell Ontology (CL) is an OBO Foundry candidate ontology covering the domain of canonical, natural biological cell types. Since its inception in 2005, CL has undergone multiple rounds revision and expansion, most notably representation hematopoietic cells. For vivo cells, focuses on vertebrates but provides general classes that can be used for other metazoans, which subtyped species-specific ontologies. Recent work has focused extending various types, developing new modules itself, related ontologies coordination with CL. example, Kidney Urinary Pathway was as a template to populate additional In addition, subtypes class ‘cell vitro’ have received improved definitions labels provide modularity cells Line Reagent Ontology. changes development methodology include switch from OWL primary encoding ontology, increasing reliance logical reasoning. now mandated metadata standard large functional genomics transcriptomics projects, extensively annotation, querying, analyses type specific data sequencing consortia such FANTOM5 ENCODE, well NIAID ImmPort database Image Library. also vital component modular construction biomedical ontologies—for Gene cross-species anatomy Uberon, use support consistent types across different levels anatomical granularity, tissues organs. ongoing improvements make it valuable resource both community wider scientific community, we continue experience increased interest among developers within user community.