Do you have to use RNAase free reagents with the NCode™ miRNA labeling kits?
It would be safest to use RNAse free reagents, preferably those provided with the kit. Are the NCode™ miRNA arrays designed to do single labeling (two cell populations are hybridized separately and then superimposed to identify differences) or dual labeling (miRNA from two cell populations are hybridized to the plate at the same time)? The arrays can be used for dual labeling by attaching different flurophors (Alexa Fluor® 3 or 5 ) to each of the two samples populations. Ncode™ Profiler can hen be used for anlyzing the data. If single color labeling is utilized, Ncode™ Profiler does not currently support this. Future versions of the software may include the ability to analyze single-color data. See the related FAQ under Data Analysis.