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P-values high across clusters? [conceptual question] #350

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bhavyaac opened this issue Sep 20, 2021 · 0 comments
Open

P-values high across clusters? [conceptual question] #350

bhavyaac opened this issue Sep 20, 2021 · 0 comments

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@bhavyaac
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Hello! I have a conceptual question regarding the meaning of the p-values generated by CellphoneDB.

I understood from the protocols paper by Efremova et al. (2020) that the p-value indicates the likelihood of the interaction being specific to a given cluster / cell-type. Therefore, I would expect that low p-values would only be present between a few clusters for a given gene interaction. However, in my dot plot of CellphoneDB results, I obtain results such as these:

image

where interactions such as CD74_MIF and EGFR_AREG have low p-values across several combinations of clusters.

How is this possible? Please let me know what you think.

@bhavyaac bhavyaac changed the title Conceptual question about p-value P-values high across clusters? [conceptual question] Sep 20, 2021
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