Cellular development RNAseq
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22 months ago
rob.costa1234 ▴ 290

In single-cell RNAseq, when we use any pseudotime/ trajectory analysis it gives us cellular physiological state. Is it possible to stack a heterogeneous population into an order of there development in that particular treatment? To further expand on the question- I have one sample diseased vs one control so I want to see how cells are developed to give rise to disease. In most cases, we have to assign one cell type as the starting point but diseased cells will be there, then how can be it explained consecutively.

rna-seq • 396 views
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Could you update your question and explain why normal pseudotime analysis would not work for your data?

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For pseudotime we assign one population as starting and map rest where they can map. If I start with a mixed population from where a specific cell type may arise, and I don’t know the start which mapping should be best. I can look for some marker genes, but how can I make sure the correct order of development

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If you do not get any further responses it is probably not clear what you are asking. Try to better explain and add details.

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