I would like to know what is the best way to call the set of genes that show "at least one read" in an RNA-seq experiment. This is, those genes that have at least one read mapping to their exonic body. There are papers out there that have split these in two classes: those genes that show reads in RNA-seq but lowly-expressed, and the highly-expressed genes:
What is the best term to call all genes with reads present in the RNA-seq experiment? Maybe "expressed genes"? Or "ascertained genes"? Or "assayed genes"?
"Detected" seems the most straightforward to me. With one read, one can consider something detected, at least versus zero reads. While most would agree that certainty is in question, and you'd have to cite that one read was the definition of detected. Nonetheless, I think it's the simplest and most descriptive relative to the other terms you suggested. "Expressed", "ascertained", and "assayed" all have an extra layer of meaning that I think you'd want to avoid with only a single read.