How to understand the degree of enrichment ??

[bitcometz]

hello, @kkdey

When I read your article, there is one thing that I don’t understand very well. The article mentions the following:

Linking B cells, T cells and monocytes to immune-related diseases

We identified the expected cell type enrichments, including enrichment of erythroid cells for red blood
cell count and of B cells and T cells for lymphocyte percentage (Figure 2C, Figure S2A).

• Figure 2C

• Figure S2A

The enrichment of erythroid cells is clear. However, besides B cells and T cells, the dendritic cells , monocytes, and megakaryocytes are also enriced for lymphocyte percentage.

Could you give me some suggestions to help me understand these results better？

Thanks !!!

Best

[kkdey]

I mean that relatively the positive control pairs have higher E-score and/or more significant p-value. It is not unexpected that you see enrichment of non-adptive immune cells for lymphocyte %age h2, as there is usually a lot of signaling and co-operative functionality across these immune cells, and also tagging cis-genetic effects with B/T cells. Something we have seen and updated in the revised manuscript is to look at pairs for which E-score > 1.5 and p-value is FDR (< 0.05) significant. In such a case, you will see most of the pairs coming up would be positive control ones.

[bitcometz]

Thanks !!! got it