I am trying to decide if I should use RNA seq to answer my research question or not and am struggling to find a basic text which helps me to understand the function of it and its applicability. I have already searched for such a text but I just want to know if there is any point in me using rna seq (single cell) to determine the amount of a particular gene in my sample - we already know there is only a small population of these cells ie Th22 cells are a small subset of Th cells.
I am trying to determine if the amount of these cells is greater in one type of patient with skin disease compared with another patient with a slightly different subtype of the disease.
Please could someone kindly recommend a text to help me to understand the basics of rna seq NOT the technical side of things but the basics of how it can be used in different scenarios.
Thanks very much for any help
My feeling is that this would be very much dependent on the expression levels of the gene. If gene you are looking at is lowly expressed then chances of being able to see counts for it are close to nil. In best of circumstances you will likely detect 20-30% of expressed genes in a single cell experiment. At least that is my peripheral understanding.
That is a different question that can't be easily answered by RNAseq of any type.
Hi GenoMax, thank you for taking the time to reply. I understand that using bulk RNA seq the signal from cells which are a small population might be difficult to detect compared with ssRNA seq is this correct? thanks alot!Fiona