Cell Ontology

The Cell Ontology is an ontology that aims at capturing the diversity of cell types in animals.^[1] It is part of the Open Biomedical and Biological Ontologies (OBO) Foundry. ^[2] The Cell Ontology identifiers and organizational structure are used to annotate data at the level of cell types, for example in single-cell RNA-seq studies.^[3] It is one important resource in the construction of the Human Cell Atlas. ^[4]

The Cell Ontology was first described in an academic article in 2005. ^[5]

References[edit]

^ Diehl AD, Meehan TF, Bradford YM, Brush MH, Dahdul WM, Dougall DS, et al. (July 2016). "The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability". Journal of Biomedical Semantics. 7 (1): 44. doi:10.1186/s13326-016-0088-7. PMC 4932724. PMID 27377652.
^ Smith B, Ashburner M, Rosse C, Bard J, Bug W, Ceusters W, et al. (November 2007). "The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration". Nature Biotechnology. 25 (11): 1251–5. doi:10.1038/nbt1346. PMC 2814061. PMID 17989687.
^ Bernstein MN, Ma Z, Gleicher M, Dewey CN (January 2021). "CellO: comprehensive and hierarchical cell type classification of human cells with the Cell Ontology". iScience. 24 (1): 101913. Bibcode:2021iSci...24j1913B. bioRxiv 10.1101/634097. doi:10.1016/j.isci.2020.101913. PMC 7753962. PMID 33364592.
^ Osumi-Sutherland, David; Xu, Chuan; Keays, Maria C.; Kharchenko, Peter V.; Regev, Aviv; Lein, Ed S.; Teichmann, Sarah (2021-06-28). "Cell type ontologies of the Human Cell Atlas". Nature Cell Biology. 23 (11): 1129–1135. arXiv:2106.14443. doi:10.1038/s41556-021-00787-7. S2CID 235658396.
^ Bard, Jonathan; Rhee, Seung Y.; Ashburner, Michael (2005). "An ontology for cell types". Genome Biology. 6 (2): R21. doi:10.1186/gb-2005-6-2-r21. PMC 551541. PMID 15693950.

External links[edit]

Cell Ontology GitHub page

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[1] Diehl AD, Meehan TF, Bradford YM, Brush MH, Dahdul WM, Dougall DS, et al. (July 2016). "The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability". Journal of Biomedical Semantics. 7 (1): 44. doi:10.1186/s13326-016-0088-7. PMC 4932724. PMID 27377652.

[2] Smith B, Ashburner M, Rosse C, Bard J, Bug W, Ceusters W, et al. (November 2007). "The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration". Nature Biotechnology. 25 (11): 1251–5. doi:10.1038/nbt1346. PMC 2814061. PMID 17989687.

[3] Bernstein MN, Ma Z, Gleicher M, Dewey CN (January 2021). "CellO: comprehensive and hierarchical cell type classification of human cells with the Cell Ontology". iScience. 24 (1): 101913. Bibcode:2021iSci...24j1913B. bioRxiv 10.1101/634097. doi:10.1016/j.isci.2020.101913. PMC 7753962. PMID 33364592.

[4] Osumi-Sutherland, David; Xu, Chuan; Keays, Maria C.; Kharchenko, Peter V.; Regev, Aviv; Lein, Ed S.; Teichmann, Sarah (2021-06-28). "Cell type ontologies of the Human Cell Atlas". Nature Cell Biology. 23 (11): 1129–1135. arXiv:2106.14443. doi:10.1038/s41556-021-00787-7. S2CID 235658396.

[5] Bard, Jonathan; Rhee, Seung Y.; Ashburner, Michael (2005). "An ontology for cell types". Genome Biology. 6 (2): R21. doi:10.1186/gb-2005-6-2-r21. PMC 551541. PMID 15693950.

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v t e Bioinformatics
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