An OBO Foundry candidate ontology covering the domain of canonical, natural biological cell types. CL, since its inception in 2005, has undergone multiple rounds of revision and expansion, most notably in its representation of hematopoietic cells. For in vivo cells, the CL focuses on vertebrates but provides general classes that can be used for other metazoans, which can be subtyped in species-specific ontologies. CL is mandated as a metadata standard for large functional genomics and transcriptomics projects, and is used extensively for annotation, querying, and analyses of cell type specific data in sequencing consortia such as FANTOM5 and ENCODE, as well as for the NIAID ImmPort database and the Cell Image Library.
Department of Neurology, University at Buffalo School of Medicine and Biomedical Sciences, Buffalo, NY, USA; European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, UK; ZFIN, the Zebrafish Model Organism Database, University of Oregon, Eugene, OR, USA; Ontology Development Group, Library, Oregon Health and Science University, Portland, OR, USA; Department of Biology, University of South Dakota, Vermillion, SD, USA; National Evolutionary Synthesis Center, Durham, NC, USA; Southwestern Medical Center, University of Texas, Dallas, TX, USA; Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI, USA; Oral Diagnostics Sciences, University at Buffalo School of Dental Medicine, Buffalo, NY, USA; The Jackson Laboratory, Bar Harbor, ME, USA; Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
CL funding source(s)
This work was supported by the NHGRI grants HG002273-09Z and HG002273; the U.S. Department of Energy under Contract No. DE-AC02-05CH11231; the NIGMS grant 2R01GM080646-06; the NIAID contract HHSN272201200028C; the NIH HG002659 and 1R01AI081062; the NIH Office of the Director 1R24OD011883; the NSF grants DBI-0641025, DBI-1062404, and DBI-1062542 and the National Evolutionary Synthesis Center under NSF EF-0423641 and NSF EF-0905606.