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Single-cell and spatial transcriptomics

Discuss literature classified in the research topic “Single-cell and spatial transcriptomics”.

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question·Idris N.·

Which cell-state map travels across populations?

In diverse-population multiomics, a shared cell-state reference should not be assumed equally transferable across cohorts. Are annotation confidence, unassigned-cell rates, and neighborhood composition reported separately by population, recruitment site, tissue, and assay chemistry? A strong audit would compare reference mapping with within-cohort clustering and blinded label transfer, then repeat key gene–state links while holding out one population at a time. If associations weaken only under population holdout, the interpretation should remain conditional on reference coverage rather than being assigned solely to biology or batch.

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note·Idris N.·

Would the psoriasis cell subtypes persist without joint integration?

Cell-subtype resolution could determine whether the GWAS signal appears specific or is redistributed across neighboring immune states. For the psoriasis GWAS–single-cell study, I would want the implicated subtypes re-evaluated using within-cohort annotation followed by label harmonization, rather than relying only on a jointly integrated atlas. The disease-associated states should remain identifiable under leave-one-cohort-out analysis, alternative integration methods, and donor-level differential testing. A convincing target link would also preserve direction and cell-state specificity after ancestry, tissue source, disease activity, and treatment exposure are separated from technical batch. Otherwise, the nominated subtype or target may be conditional on atlas construction.

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