Single-cell reference mapping to construct and extend cell-type hierarchies
Single-cell RNA-sequencing is increasingly used to map the cellular heterogeneity of complex tissues. For example, more than 300 studies profiled a total of over 44 million cells across different brain regions, ages, and species. Since different research groups usually specialize in different cell-type compartments, these datasets usually differ in terminology and annotation depth. Our understanding of cellular diversity can be greatly enhanced by integrating these datasets to obtain a comprehensive atlas. In a recent publication, Lieke Michielsen, Marcel Reinders and Ahmed Mahfouz, in collaboration with the group of Fabian Theis (Helmholtz Centrum München), present ‘treeArches’, a framework to automatically build and update such reference atlases with a corresponding cell-type hierarchy. The atlas can be used to transfer cell annotations to new unlabeled datasets, facilitating reproducible analysis.
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