[BioC] RNA deg plot
jjin at email.unc.edu
Thu Apr 28 20:22:33 CEST 2005
I looked at RNA degradation for a hg-U133plus2 chip, which a lab ran for a
pilot experiment(please see the attachment). The RNA digestion plot
appeared fine except the 5' end and a couple of 3' end positions. The mean
intensity on both ends dropped dramatically relative to others.
I have observed several other RNA digestion plots of hg-U133plus2 chips
from a different lab. Their plots were almost linear with slope ranging
from 3 to 6. Most often it is 5' end probes that underwent significant RNA
degradation. Does anyone have reasonable interpretation for the "drop down"
plot? Any comments are highly appreciated.
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