Is it normal that my RNA degradation plot shows more degradation at the 3'-end?

0

Entering edit mode

9.2 years ago

Juan Cordero ▴ 140

Dear comm,

I have made a RNA degradation plot with the function plotAffyRNAdeg from affy package (Bioconductor) and it seems RNA is more degraded at the 3'-end compared with the 5'. What does it mean? Should I trust my results? Should I correct anything?

BTW, all p-values from summaryRNAdeg function are below 0.05.

Thanks in advance

Bioconductor Affymetrix Microarray R • 1.9k views

ADD COMMENT • link updated 2.2 years ago by Ram 44k • written 9.2 years ago by Juan Cordero ▴ 140

1

Entering edit mode

Show the figures so others can give their opinion.

But in general, RNA quality towards 3'ends are of lower quality with respect to 5'-ends.

ADD REPLY • link 9.2 years ago by Chirag Nepal ★ 2.4k

0

Entering edit mode

image: drosophila_RNAdeg

I get a plot with an opposite trend to this one: lower values in the x-axis get higher values in the y-axis, and vice versa.

ADD REPLY • link updated 2.2 years ago by Ram 44k • written 9.2 years ago by Juan Cordero ▴ 140

Login before adding your answer.