| URL: | https://ngdc.cncb.ac.cn/celltaxonomy/ |
| Full name: | Cell Types and Markers |
| Description: | Cell Taxonomy is a manually curated repository of cell types and associated markers encompassing a wide range of species, tissues and conditions. Cell Taxonomy presents a well-structured taxonomy for curated cell types and incorporates scRNA-seq datasets for millions of single cells to enable further exploration of cell types and markers. Multi-faceted characterization is provided including association analysis of cell types/markers/tissues, cellular component similarity estimation and quality assessment of gene markers and cell clusters. Cell Taxonomy can serve as a fundamental reference cellular resource to help accurate cell type characterization and cell marker selection and support a wide range of single-cell research. |
| Year founded: | 2022 |
| Last update: | 2022-09-15 |
| Version: | 1.0 |
| Accessibility: | |
| Country/Region: | China |
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| University/Institution: | Beijing Institute of Genomics, Chinese Academy of Sciences |
| Address: | |
| City: | Beijing |
| Province/State: | Beijing |
| Country/Region: | China |
| Contact name (PI/Team): | Shuai Jiang |
| Contact email (PI/Helpdesk): | jiangs@big.ac.cn |
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Cell Taxonomy: a curated repository of cell types with multifaceted characterization. [PMID: 36161321]
Single-cell studies have delineated cellular diversity and uncovered increasing numbers of previously uncharacterized cell types in complex tissues. Thus, synthesizing growing knowledge of cellular characteristics is critical for dissecting cellular heterogeneity, developmental processes and tumorigenesis at single-cell resolution. Here, we present Cell Taxonomy (https://ngdc.cncb.ac.cn/celltaxonomy), a comprehensive and curated repository of cell types and associated cell markers encompassing a wide range of species, tissues and conditions. Combined with literature curation and data integration, the current version of Cell Taxonomy establishes a well-structured taxonomy for 3,143 cell types and houses a comprehensive collection of 26,613 associated cell markers in 257 conditions and 387 tissues across 34 species. Based on 4,299 publications and single-cell transcriptomic profiles of ∼3.5 million cells, Cell Taxonomy features multifaceted characterization for cell types and cell markers, involving quality assessment of cell markers and cell clusters, cross-species comparison, cell composition of tissues and cellular similarity based on markers. Taken together, Cell Taxonomy represents a fundamentally useful reference to systematically and accurately characterize cell types and thus lays an important foundation for deeply understanding and exploring cellular biology in diverse species. |