Background: We have done single cell RNA seq, it went well, and we are preparing to do more projects.
When we did it the first time, we troubleshot our cell dissociation protocol and made sure that we could get good RINs from bulk RNA before proceeding. Now we are dealing with projects that have fewer cells available for isolation making it harder to verify RNA integrity before proceeding. What do you guys do to make sure your cells are healthy and intact before proceeding with a costly experiment like scRNA seq? Just live/dead and then gun it, and sort it out informatically on the back end?
Thanks in advance, sorry if this question is a little wet for biostars.