BAevermann
commented
1 year ago Hello Jinyuan!
You are indeed correct. The cell type annotations are applied at varying resolution across datasets. This is the result of our curation/ingestion process where the data contributor (usually the lab that generated the data) is responsible for assigning cell types at the level they feel comfortable which leads to the heterogeneity in resolution. Could you explain "full cell type ontology for each cell record" a bit more for me? Do you want to see a given cell type within its ontological context? If so, the Cell Guide tool might be of help as it has an easily navigable tree view of the ontology that focuses on a given cell type. See here for the B cell example https://cellxgene.cziscience.com/cellguide/CL_0000236 used earlier.
Thanks!
Brian Aevermann
On Tue, Oct 31, 2023 at 5:52 AM Jinyuan @.***> wrote:
I observe that there is cell type annotation at different resolutions. For example, most B cells are annotated as B cells in PBMC, while some are annotated at fine granularity, such as mature B cells. Is there a criterion for these annotations? And is there a recommended way to get the full cell type ontology for each cell record?
Many thanks!
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JY-97
I observe that there is cell type annotation at different resolutions. For example, most B cells are annotated as B cells in PBMC, while some are annotated at fine granularity, such as mature B cells. Is there a criterion for these annotations? And is there a recommended way to get the full cell type ontology for each cell record?
Many thanks!