Integrating single-nucleus RNA-seq and single-cell RNA-seq datasets

Question

[bompipi95]

Hi all,

I am looking to integrate several scRNAseq datasets with a snRNAseq dataset.

What are thoughts on integrating datasets from these 2 different modalities? Is it feasible/worth trying, or is it likely to do it poorly?

Would appreciate it if you could reference some publications that compare the results of the integration.

[rpolicastro]

What do you want to do with the data once you integrate it?

[bompipi95]

Standard stuff: e.g. compare DEGs between clusters and differential abundance analysis between 2 conditions.