So I am in the process of RNA amplification and I'm having a little trouble. I ran an invitro transcription reaction to make RNA and then immediately after did a bead cleanup with Ampure beads. When I ran my RNA on the Nanodrop I got a nice curve and about 100ng/ul was quantified. After that I ran my RNA on a bioanalyzer chip (NanoChip) and got absolutely nothing. I know the chip worked because I loaded control RNA but the sample I used IVT on and got good Nanodrop results from was blank. I assume this to mean my sample is full of free nucleotides but I don't understand how they weren't removed during bead clean up. Any ideas what I might be doing wrong???