I have single cell data from two different organs, A and B, respectively. I intend to find the ligand-receptor interaction pairings between the two organs. Therefore, I have directly merged the data sets from organ A and organ B together. Is this OK? Or is there a better way?
Furthermore, I am only concerned with ligand-receptor pairs where the ligand is in A and the receptor is in B (or where the ligand is in B and the receptor is in A), not ligand-receptor pairs where both the ligand and the receptor are in A (or both are in B). Thus, if a ligand is highly expressed in all cell types in organ A but less so in organ B, and its corresponding receptor is highly expressed in all cell types in organ B but less so in organ A, will this gene always be selected as a significant ligand-receptor pair because of the difference in expression in the two organs?
Hi Dr. Jin,
I have single cell data from two different organs, A and B, respectively. I intend to find the ligand-receptor interaction pairings between the two organs. Therefore, I have directly merged the data sets from organ A and organ B together. Is this OK? Or is there a better way?
Furthermore, I am only concerned with ligand-receptor pairs where the ligand is in A and the receptor is in B (or where the ligand is in B and the receptor is in A), not ligand-receptor pairs where both the ligand and the receptor are in A (or both are in B). Thus, if a ligand is highly expressed in all cell types in organ A but less so in organ B, and its corresponding receptor is highly expressed in all cell types in organ B but less so in organ A, will this gene always be selected as a significant ligand-receptor pair because of the difference in expression in the two organs?
Thanks!