Bioanalyzer RNA profiles inconsistent from FFPE samples

[kelspong]

Hi all,

I've sectioned several 10um of FFPE samples and extracted RNA using Qiagen RNeasy for FFPE kit.

However, when I run the extracted RNA through Bioanalyzer, the profiles are shown to be inconsistent. During sectioning, I failed to labelled the paraffin samples in continuity; my question is, does RNA extracted from the same FFPE samples supposed to have consistent RNA profiles in the bioanalyzer?

Or could the different sectioning (such as several 10um difference) proves this inconsistency?

Attached here are the bioanalyzer profiles of the 2 samples that i've worked on..

Thanks in advance!